3′-deoxy nucleosides for the treatment of HCV

ABSTRACT

Provided herein are compounds, compositions and methods for the treatment of Flaviviridae infections, including HCV infections. In certain embodiments, compounds and compositions of nucleoside derivatives are disclosed, which can be administered either alone or in combination with other anti-viral agents. In certain embodiments, the compounds are 3′-deoxy nucleoside compounds according to Formula 3001a or 3001b: 
                         
or a pharmaceutically acceptable salts, solvates, stereoisomeric forms, tautomeric forms, or polymorphic forms thereof, wherein PD, Base 1  and Base 2  are as provided herein.

FIELD

Provided herein are compounds, methods, and pharmaceutical compositionsfor use in treatment of viral infections, including hepatitis C virusinfections in hosts in need thereof. In certain embodiments, 3′-deoxynucleosides are provided which display remarkable efficacy andbioavailability for the treatment of, for example, HCV infection in ahuman.

BACKGROUND

The hepatitis C virus (HCV) is the leading cause of chronic liverdisease worldwide. (Boyer, N. et al., J. Hepatol. 32:98-112, 2000). HCVcauses a slow growing viral infection and is the major cause ofcirrhosis and hepatocellular carcinoma (Di Besceglie, A. M. and Bacon,B. R., Scientific American, October: 80-85, 1999; Boyer, N. et al., J.Hepatol. 32:98-112, 2000). It is estimated there are about 150 millionpeople with chronic hepatitis C virus infection, and there are about350,000 deaths from hepatitis C-related liver diseases each year(Hepatitis C Fact Sheet, World Health Organization Fact Sheet No. 164,July 2013). Cirrhosis caused by chronic hepatitis C infection accountsfor 8,000-12,000 deaths per year in the United States, and HCV infectionis the leading indication for liver transplantation.

HCV infection becomes chronic in about 75% of cases, with many patientsinitially being asymptomatic. The first symptoms of HCV infection areoften those of chronic liver disease. About 20 to 30% of patients withchronic hepatitis due to HCV develop cirrhosis, although this may takedecades. Development of cirrhosis due to HCV also increases the risk ofhepatocellular cancer (The Merck Manual Online, Chronic Hepatitis,available atwww.merckmanuals.com/professional/hepatic_and_biliary_disorders/hepatitis/chronic_hepatitis.html, last revision March 2013).

In light of the fact that HCV infection has reached epidemic levelsworldwide, and has tragic effects on the infected patient, there remainsa strong need to provide new effective pharmaceutical agents to treathepatitis C that have low toxicity to the host. Further, given therising threat of other flaviviridae infections, there remains a strongneed to provide new effective pharmaceutical agents that have lowtoxicity to the host. Therefore, there is a continuing need foreffective treatments of flavivirus infections and HCV infections.

SUMMARY

Provided herein are compounds useful, for example, for the treatment offlavivirus infections such as HCV infections. The compounds are 3′-deoxynucleosides. In certain embodiments the 3′-deoxy nucleosides displayremarkable efficacy or bioavailability, or both, for the treatment of,for example, HCV infection in a human.

In certain embodiments, the compounds provided herein are useful in theprevention and treatment of Flaviviridae infections and other relatedconditions such as anti-Flaviviridae antibody positive andFlaviviridae-positive conditions, chronic liver inflammation caused byHCV, cirrhosis, fibrosis, acute hepatitis, fulminant hepatitis, chronicpersistent hepatitis and fatigue. These compounds or formulations canalso be used prophylactically to prevent or retard the progression ofclinical illness in individuals who are anti-Flaviviridae antibody orFlaviviridae-antigen positive or who have been exposed to aFlaviviridae. In particular embodiments, the Flaviviridae is hepatitisC. In certain embodiments, the compounds are used to treat any virusthat replicates through an RNA-dependent RNA polymerase.

A method for the treatment of a Flaviviridae infection in a host,including a human, is also provided that includes administering aneffective amount of a compound provided herein, administered eitheralone or in combination or alternation with another anti-Flaviviridaeagent, optionally in a pharmaceutically acceptable carrier.

In certain embodiments, provided herein are compounds according toFormula 3001a or 3001b:

or a pharmaceutically acceptable salt, solvate, stereoisomeric form,tautomeric form, or polymorphic form thereof, wherein:

each Base¹ is independently

or a tautomeric form thereof;

each Base² is independently

or a tautomeric form thereof;

each R⁴ is independently hydrogen, hydroxyl, amino, halo, or alkoxyl;

each R⁵ is independently hydrogen, hydroxyl, amino, or alkoxyl;

each R⁶ is independently hydrogen, halogen, or alkyl;

each R⁷ is independently hydrogen, or amino;

each R⁸ is independently hydrogen, amino, halo, or C₂₋₆ alkoxyl;

each R⁹ is independently hydrogen or amino;

PD is hydrogen,

W is S or O;

each of X and Y is independently hydrogen, —OR¹, —SR¹, —NR¹R², anN-linked or O-linked amino acid residue, or a derivative thereof;

each R¹ is independently hydrogen, alkyl, aryl, heteroaryl, arylalkyl,cycloalkyl, heterocycloalkyl, alkoxylcarbonylalkyl, oralkylcarbonylthioalkyl; and

each R² is independently hydrogen, alkyl, cycloalkyl, aryl, orarylalkyl.

In certain embodiments, provided herein are compounds according toFormula 2001a or 2001b:

or a pharmaceutically acceptable salt, solvate, stereoisomeric form,tautomeric form or polymorphic form thereof, wherein: each Base¹ isindependently

or a tautomeric form thereof; each Base² is independently

or a tautomeric form thereof; each R⁴ is independently hydrogen,hydroxyl, amino, halo or alkoxyl; each R⁵ is independently hydrogen,hydroxyl, amino or alkoxyl; each R⁶ is independently hydrogen, halogen,or alkyl; each R⁷ is independently hydrogen or —NH₂; PD is hydrogen,

W is S or O; each of X and Y is independently hydrogen, —OR¹, —SR¹,—NR¹R², or an N-linked amino acid, or ester thereof; each R¹ isindependently hydrogen, alkyl, cycloalkyl, aryl, heteroaryl, arylalkyl,or heteroarylalkyl; and each R² is independently hydrogen or alkyl.

In certain embodiments, provided herein are compounds according toFormula Ia or Ib:

or a pharmaceutically acceptable salt, solvate, stereoisomeric form,tautomeric form or polymorphic form thereof, wherein: each Base¹ isindependently

or a tautomeric form thereof; each Base² is independently

or a tautomeric form thereof; each R⁴ is independently hydrogen,hydroxyl, amino, or alkoxyl; each R⁵ is independently hydrogen,hydroxyl, or alkoxyl; each R⁶ is independently hydrogen, halogen, oralkyl; each R⁷ is independently hydrogen or —NH₂; PD is hydrogen,

W is S or O; each of X and Y is independently hydrogen, —OR¹, —SR¹,—NR¹R², or an N-linked amino acid, or ester thereof; each R¹ isindependently hydrogen, alkyl, cycloalkyl, aryl, heteroaryl, arylalkyl,or heteroarylalkyl; and each R² is independently hydrogen or alkyl.

In one aspect, the compounds provided herein are provided oradministered in combination with a second therapeutic agent, such as oneuseful for the treatment or prevention of HCV infections. Exemplarysecond therapeutic agents are provided in detail elsewhere herein.

In another aspect, provided herein are pharmaceutical compositions,single unit dosage forms, and kits suitable for use in treating orpreventing disorders such as HCV infections which comprise atherapeutically or prophylactically effective amount of a compoundprovided herein, e.g., of Formula 3001a-b, 2001a-b, Ia-XII, 1a-4-bii,102, 202-205, or 1001-1004 and a therapeutically or prophylacticallyeffective amount of a second therapeutic agent such as one useful forthe treatment or prevention of HCV infections.

In certain embodiments, a method of treatment of a liver disorder isprovided comprising administering to an individual in need thereof atreatment effective amount of a 3′-deoxy nucleoside compound.

Flaviviridae which can be treated are, e.g., discussed generally inFields Virology, Fifth Ed., Editors: Knipe, D. M., and Howley, P. M.,Lippincott Williams & Wilkins Publishers, Philadelphia, Pa., Chapters33-35, 2006. In a particular embodiment of the invention, theFlaviviridae is HCV. In an alternate embodiment, the Flaviviridae is aflavivirus or pestivirus. In certain embodiments, the Flaviviridae canbe from any class of Flaviviridae. In certain embodiments, theFlaviviridae is a mammalian tick-borne virus. In certain embodiments,the Flaviviridae is a seabird tick-borne virus. In certain embodiments,the Flaviviridae is a mosquito-borne virus. In certain embodiments, theFlaviviridae is an Aroa virus. In certain embodiments, the Flaviviridaeis a Dengue virus. In certain embodiments, the Flaviviridae is aJapanese encephalitis virus. In certain embodiments, the Flaviviridae isa Kokobera virus. In certain embodiments, the Flaviviridae is a Ntayavirus. In certain embodiments, the Flaviviridae is a Spondweni virus. Incertain embodiments, the Flaviviridae is a Yellow fever virus. Incertain embodiments, the Flaviviridae is a Entebbe virus. In certainembodiments, the Flaviviridae is a Modoc virus. In certain embodiments,the Flaviviridae is a Rio Bravo virus.

Specific flaviviruses which can be treated include, without limitation:Absettarov, Aedes, Alfuy, Alkhurma, Apoi, Aroa, Bagaza, Banzi, Bukalasabat, Bouboui, Bussuquara, Cacipacore, Calbertado, Carey Island, Cellfusing agent, Cowbone Ridge, Culex, Dakar bat, Dengue 1, Dengue 2,Dengue 3, Dengue 4, Edge Hill, Entebbe bat, Gadgets Gully, Hanzalova,Hypr, Ilheus, Israel turkey meningoencephalitis, Japanese encephalitis,Jugra, Jutiapa, Kadam, Kamiti River, Karshi, Kedougou, Kokobera,Koutango, Kumlinge, Kunjin, Kyasanur Forest disease, Langat, Loupingill, Meaban, Modoc, Montana myotis leukoencephalitis, Murray valleyencephalitis, Nakiwogo, Naranjal, Negishi, Ntaya, Omsk hemorrhagicfever, Phnom-Penh bat, Powassan, Quang Binh, Rio Bravo, Rocio, RoyalFarm, Russian spring-summer encephalitis, Saboya, St. Louisencephalitis, Sal Vieja, San Perlita, Saumarez Reef, Sepik, Sokuluk,Spondweni, Stratford, Tembusu, Tick-borne encephalitis, Turkish sheepencephalitis, Tyuleniy, Uganda S, Usutu, Wesselsbron, West Nile,Yaounde, Yellow fever, Yokose, and Zika.

Pestiviruses which can be treated are discussed generally in FieldsVirology, Fifth Ed., Editors: Knipe, D. M., and Howley, P. M.,Lippincott Williams & Wilkins Publishers, Philadelphia, Pa., Chapters33-35, 2006. Specific pestiviruses which can be treated include, withoutlimitation: bovine viral diarrhea virus (“BVDV”), classical swine fevervirus (“CSFV,” also called hog cholera virus), and border disease virus(“BDV”).

DESCRIPTION OF EXEMPLARY EMBODIMENTS

Provided herein are compounds, compositions, and methods useful fortreating liver disorders such as HCV infection in a subject. Furtherprovided are dosage forms useful for such methods.

Definitions

When referring to the compounds provided herein, the following termshave the following meanings unless indicated otherwise. Unless definedotherwise, all technical and scientific terms used herein have the samemeaning as is commonly understood by one of ordinary skill in the art.In the event that there is a plurality of definitions for a term herein,those in this section prevail unless stated otherwise.

The term “alkyl,” as used herein, unless otherwise specified, refers toa saturated straight or branched hydrocarbon. In certain embodiments,the alkyl group is a primary, secondary, or tertiary hydrocarbon. Incertain embodiments, the alkyl group includes one to ten carbon atoms,i.e., C₁ to C₁₀ alkyl. In certain embodiments, the alkyl group ismethyl, CF₃, CCl₃, CFCl₂, CF₂Cl, ethyl, CH₂CF₃, CF₂CF₃, propyl,isopropyl, butyl, isobutyl, secbutyl, t-butyl, pentyl, isopentyl,neopentyl, hexyl, isohexyl, 3-methylpentyl, 2,2-dimethylbutyl, or2,3-dimethylbutyl. The term includes both substituted and unsubstitutedalkyl groups, including halogenated alkyl groups. In certainembodiments, the alkyl group is a fluorinated alkyl group. Non-limitingexamples of moieties with which the alkyl group can be substitutedinclude, but not limited to, halogen (fluoro, chloro, bromo, or iodo),hydroxyl, carbonyl, sulfanyl, amino, alkylamino, arylamino, alkoxy,aryloxy, nitro, cyano, sulfonic acid, sulfate, phosphonic acid,phosphate, or phosphonate, either unprotected, or protected asnecessary, as known to those skilled in the art, for example, as taughtin Greene, et al., Protective Groups in Organic Synthesis, John Wileyand Sons, Second Edition, 1991, hereby incorporated by reference.

The term “lower alkyl,” as used herein, and unless otherwise specified,refers to a saturated straight or branched hydrocarbon having one to sixcarbon atoms, i.e., C₁ to C₆ alkyl. In certain embodiments, the loweralkyl group is a primary, secondary, or tertiary hydrocarbon. The termincludes both substituted and unsubstituted moieties.

The term “upper alkyl,” as used herein, and unless otherwise specified,refers to a saturated straight or branched hydrocarbon having seven tothirty carbon atoms, i.e., C₇ to C₃₀ alkyl. In certain embodiments, theupper alkyl group is a primary, secondary, or tertiary hydrocarbon. Theterm includes both substituted and unsubstituted moieties.

The term “cycloalkyl,” as used herein, unless otherwise specified,refers to a saturated cyclic hydrocarbon. In certain embodiments, thecycloalkyl group may be a saturated, and/or bridged, and/or non-bridged,and/or a fused bicyclic group. In certain embodiments, the cycloalkylgroup includes three to ten carbon atoms, i.e., C₃ to C₁₀ cycloalkyl. Insome embodiments, the cycloalkyl has from 3 to 15 (C₃₋₁₅), from 3 to 10(C₃₋₁₀), or from 3 to 7 (C₃₋₇) carbon atoms. In certain embodiments, thecycloalkyl group is cyclopropyl, cyclobutyl, cyclopentyl, cyclohexyl,cyclohexylmethyl, cycloheptyl, bicyclo[2.1.1]hexyl,bicyclo[2.2.1]heptyl, decalinyl, or adamantyl. The term includes bothsubstituted and unsubstituted cycloalkyl groups, including halogenatedcycloalkyl groups. In certain embodiments, the cycloalkyl group is afluorinated cycloalkyl group. Non-limiting examples of moieties withwhich the cycloalkyl group can be substituted include, but not limitedto, halogen (fluoro, chloro, bromo, or iodo), hydroxyl, carbonyl,sulfanyl, amino, alkylamino, arylamino, alkoxy, aryloxy, nitro, cyano,sulfonic acid, sulfate, phosphonic acid, phosphate, or phosphonate,either unprotected, or protected as necessary.

“Alkylene” refers to divalent saturated aliphatic hydrocarbon groupsparticularly having from one to eleven carbon atoms which can bestraight-chained or branched. In certain embodiments, the alkylene groupcontains 1 to 10 carbon atoms. The term includes both substituted andunsubstituted moieties. This term is exemplified by groups such asmethylene (—CH₂—), ethylene (—CH₂CH₂—), the propylene isomers (e.g.,—CH₂CH₂CH₂— and —CH(CH₃)CH₂—) and the like. The term includeshalogenated alkylene groups. In certain embodiments, the alkylene groupis a fluorinated alkylene group. Non-limiting examples of moieties withwhich the alkylene group can be substituted include, but not limited to,halogen (fluoro, chloro, bromo, or iodo), hydroxyl, carbonyl, sulfanyl,amino, alkylamino, alkylaryl, arylamino, alkoxy, aryloxy, nitro, cyano,sulfonic acid, sulfate, phosphonic acid, phosphate, and phosphonate,either unprotected, or protected as necessary.

“Alkenyl” refers to monovalent olefinically unsaturated hydrocarbongroups, in certain embodiment, having up to about 11 carbon atoms, from2 to 8 carbon atoms, or from 2 to 6 carbon atoms, which can bestraight-chained or branched and having at least 1 or from 1 to 2 sitesof olefinic unsaturation. The term includes both substituted andunsubstituted moieties. Exemplary alkenyl groups include ethenyl (i.e.,vinyl or —CH═CH₂), n-propenyl (—CH₂CH═CH₂), isopropenyl (—C(CH₃)═CH₂),and the like. The term includes halogenated alkenyl groups. In certainembodiments, the alkenyl group is a fluorinated alkenyl group.Non-limiting examples of moieties with which the alkenyl group can besubstituted include, but not limited to, halogen (fluoro, chloro, bromo,or iodo), hydroxyl, carbonyl, sulfanyl, amino, alkylamino, arylamino,alkoxy, aryloxy, nitro, cyano, sulfonic acid, sulfate, phosphonic acid,phosphate, or phosphonate, either unprotected, or protected asnecessary.

The term “cycloalkenyl,” as used herein, unless otherwise specified,refers to an unsaturated cyclic hydrocarbon. In certain embodiments,cycloalkenyl refers to mono- or multicyclic ring systems that include atleast one double bond. In certain embodiments, the cycloalkenyl groupmay be a bridged, non-bridged, and/or a fused bicyclic group. In certainembodiments, the cycloalkyl group includes three to ten carbon atoms,i.e., C₃ to C₁₀ cycloalkyl. In some embodiments, the cycloalkenyl hasfrom 3 to 7 (C₃₋₁₀), or from 4 to 7 (C₄₋₇) carbon atoms. The termincludes both substituted and unsubstituted cycloalkenyl groups,including halogenated cycloalkenyl groups. In certain embodiments, thecycloalkenyl group is a fluorinated cycloalkenyl group. Non-limitingexamples of moieties with which the cycloalkenyl group can besubstituted include, but not limited to, halogen (fluoro, chloro, bromo,or iodo), hydroxyl, carbonyl, sulfanyl, amino, alkylamino, arylamino,alkoxy, aryloxy, nitro, cyano, sulfonic acid, sulfate, phosphonic acid,phosphate, or phosphonate, either unprotected, or protected asnecessary.

“Alkenylene” refers to divalent olefinically unsaturated hydrocarbongroups, in certain embodiments, having up to about 11 carbon atoms orfrom 2 to 6 carbon atoms which can be straight-chained or branched andhaving at least 1 or from 1 to 2 sites of olefinic unsaturation. Thisterm is exemplified by groups such as ethenylene (—CH═CH—), thepropenylene isomers (e.g., —CH═CHCH₂— and —C(CH₃)═CH— and —CH═C(CH₃)—)and the like. The term includes both substituted and unsubstitutedalkenylene groups, including halogenated alkenylene groups. In certainembodiments, the alkenylene group is a fluorinated alkenylene group.Non-limiting examples of moieties with which the alkenylene group can besubstituted include, but not limited to, halogen (fluoro, chloro, bromo,or iodo), hydroxyl, carbonyl, sulfanyl, amino, alkylamino, arylamino,alkoxy, aryloxy, nitro, cyano, sulfonic acid, sulfate, phosphonic acid,phosphate, or phosphonate, either unprotected, or protected asnecessary.

“Alkynyl” refers to acetylenically unsaturated hydrocarbon groups, incertain embodiments, having up to about 11 carbon atoms or from 2 to 6carbon atoms which can be straight-chained or branched and having atleast 1 or from 1 to 2 sites of alkynyl unsaturation. Non-limitingexamples of alkynyl groups include acetylenic, ethynyl (—C≡CH),propargyl (—CH₂C≡CH), and the like. The term includes both substitutedand unsubstituted alkynyl groups, including halogenated alkynyl groups.In certain embodiments, the alkynyl group is a fluorinated alkynylgroup. Non-limiting examples of moieties with which the alkynyl groupcan be substituted include, but not limited to, halogen (fluoro, chloro,bromo, or iodo), hydroxyl, carbonyl, sulfanyl, amino, alkylamino,arylamino, alkoxy, aryloxy, nitro, cyano, sulfonic acid, sulfate,phosphonic acid, phosphate, or phosphonate, either unprotected, orprotected as necessary.

The term “aryl,” as used herein, and unless otherwise specified, refersto a substituent derived from an aromatic ring. In an embodiment, anaryl group is a C₆-C₁₂ aryl group. In an embodiment, an aryl group isphenyl, biphenyl, or naphthyl. The term includes both substituted andunsubstituted moieties. An aryl group can be substituted with anydescribed moiety, including, but not limited to, one or more moietiesselected from halogen (fluoro, chloro, bromo, or iodo), alkyl,haloalkyl, hydroxyl, amino, alkylamino, arylamino, alkoxy, aryloxy,nitro, cyano, sulfonic acid, sulfate, phosphonic acid, phosphate, orphosphonate, either unprotected, or protected as necessary, as known tothose skilled in the art, for example, as taught in Greene, et al.,Protective Groups in Organic Synthesis, John Wiley and Sons, SecondEdition, 1991.

The terms “alkoxy” and “alkoxyl” are synonymous and refer to the group—OR′ where R′ is alkyl or cycloalkyl. Alkoxy groups include, by way ofexample, methoxy, ethoxy, n-propoxy, isopropoxy, n-butoxy, tert-butoxy,sec-butoxy, n-pentoxy, n-hexoxy, 1,2-dimethylbutoxy, and the like.

“Alkoxycarbonyl” refers to a radical —C(O)-alkoxy where alkoxy is asdefined herein.

“Amino” refers to the group —NR^(1′)R^(2′) or —NR^(1′)—, wherein R^(1′)and R^(2′) are independently selected from hydrogen, alkyl, andcycloalkyl.

“Amino alcohol” refers to the radical —NHLOH, wherein L is alkylene.

“Carboxyl” or “carboxy” refers to the radical —C(O)OH or —C(O)O—.

The term “alkylamino” or “arylamino” refers to an amino group that hasone or two alkyl or aryl substituents, respectively. In certainembodiments, the alkyl substituent is upper alkyl. In certainembodiments, the alkyl substituent is lower alkyl. In anotherembodiment, the alkyl, upper alkyl, or lower alkyl is unsubstituted.

“Halogen” or “halo” refers to chloro, bromo, fluoro, or iodo.

“Thioalkoxy” refers to the group —SR′ where R′ is alkyl or cycloalkyl.

The term “heterocyclyl” or “heterocyclic” refers to a monovalentmonocyclic non-aromatic ring system and/or multicyclic ring system thatcontains at least one non-aromatic ring, wherein one or more of thenon-aromatic ring atoms are heteroatoms independently selected from O,S, or N; and the remaining ring atoms are carbon atoms. In certainembodiments, the heterocyclyl or heterocyclic group has from 3 to 20,from 3 to 15, from 3 to 10, from 3 to 8, from 4 to 7, or from 5 to 6ring atoms. Heterocyclyl groups are bonded to the rest of the moleculethrough the non-aromatic ring. In certain embodiments, the heterocyclylis a monocyclic, bicyclic, tricyclic, or tetracyclic ring system, whichmay include a fused or bridged ring system, and in which the nitrogen orsulfur atoms may be optionally oxidized, the nitrogen atoms may beoptionally quaternized, and some rings may be partially or fullysaturated, or aromatic. The heterocyclyl may be attached to the mainstructure at any heteroatom or carbon atom which results in the creationof a stable compound. Examples of such heterocyclic radicals include,but are not limited to, azepinyl, benzodioxanyl, benzodioxolyl,benzofuranonyl, benzopyranonyl, benzopyranyl, benzotetrahydrofuranyl,benzotetrahydrothienyl, benzothiopyranyl, benzoxazinyl, β-carbolinyl,chromanyl, chromonyl, cinnolinyl, coumarinyl, decahydroisoquinolinyl,dihydrobenzisothiazinyl, dihydrobenzisoxazinyl, dihydrofuryl,dihydroisoindolyl, dihydropyranyl, dihydropyrazolyl, dihydropyrazinyl,dihydropyridinyl, dihydropyrimidinyl, dihydropyrrolyl, dioxolanyl,1,4-dithianyl, furanonyl, imidazolidinyl, imidazolinyl, indolinyl,isobenzotetrahydrofuranyl, isobenzotetrahydrothienyl, isochromanyl,isocoumarinyl, isoindolinyl, isothiazolidinyl, isoxazolidinyl,morpholinyl, octahydroindolyl, octahydroisoindolyl, oxazolidinonyl,oxazolidinyl, oxiranyl, piperazinyl, piperidinyl, 4-piperidonyl,pyrazolidinyl, pyrazolinyl, pyrrolidinyl, pyrrolinyl, quinuclidinyl,tetrahydrofuryl, tetrahydroisoquinolinyl, tetrahydropyranyl,tetrahydrothienyl, thiamorpholinyl, thiazolidinyl, tetrahydroquinolinyl,and 1,3,5-trithianyl. In certain embodiments, heterocyclic may also beoptionally substituted as described herein.

The term “heteroaryl” refers to a monovalent monocyclic aromatic groupand/or multicyclic aromatic group that contains at least one aromaticring, wherein at least one aromatic ring contains one or moreheteroatoms independently selected from O, S, and N in the ring.Heteroaryl groups are bonded to the rest of the molecule through thearomatic ring. Each ring of a heteroaryl group can contain one or two Oatoms, one or two S atoms, and/or one to four N atoms, provided that thetotal number of heteroatoms in each ring is four or less and each ringcontains at least one carbon atom. In certain embodiments, theheteroaryl has from 5 to 20, from 5 to 15, or from 5 to 10 ring atoms.Examples of monocyclic heteroaryl groups include, but are not limitedto, furanyl, imidazolyl, isothiazolyl, isoxazolyl, oxadiazolyl,oxadiazolyl, oxazolyl, pyrazinyl, pyrazolyl, pyridazinyl, pyridyl,pyrimidinyl, pyrrolyl, thiadiazolyl, thiazolyl, thienyl, tetrazolyl,triazinyl, and triazolyl. Examples of bicyclic heteroaryl groupsinclude, but are not limited to, benzofuranyl, benzimidazolyl,benzoisoxazolyl, benzopyranyl, benzothiadiazolyl, benzothiazolyl,benzothienyl, benzotriazolyl, benzoxazolyl, furopyridyl,imidazopyridinyl, imidazothiazolyl, indolizinyl, indolyl, indazolyl,isobenzofuranyl, isobenzothienyl, isoindolyl, isoquinolinyl,isothiazolyl, naphthyridinyl, oxazolopyridinyl, phthalazinyl,pteridinyl, purinyl, pyridopyridyl, pyrrolopyridyl, quinolinyl,quinoxalinyl, quinazolinyl, thiadiazolopyrimidyl, and thienopyridyl.Examples of tricyclic heteroaryl groups include, but are not limited to,acridinyl, benzindolyl, carbazolyl, dibenzofuranyl, perimidinyl,phenanthrolinyl, phenanthridinyl, phenarsazinyl, phenazinyl,phenothiazinyl, phenoxazinyl, and xanthenyl. In certain embodiments,heteroaryl may also be optionally substituted as described herein.

The term “alkylaryl” refers to an aryl group with an alkyl substituent.The term “aralkyl” or “arylalkyl” refers to an alkyl group with an arylsubstituent.

The term “alkylheterocyclyl” refers to a heterocyclyl group with analkyl substituent. The term “heterocyclylalkyl” refers to an alkyl groupwith a heterocyclyl substituent.

The term “alkylheteroaryl” refers to a heteroaryl group with an alkylsubstituent. The term “heteroarylalkyl” refers to an alkyl group with aheteroaryl substituent.

The term “protecting group” as used herein and unless otherwise definedrefers to a group that is added to an oxygen, nitrogen, or phosphorusatom to prevent its further reaction or for other purposes. A widevariety of oxygen and nitrogen protecting groups are known to thoseskilled in the art of organic synthesis.

“Pharmaceutically acceptable salt” refers to any salt of a compoundprovided herein which retains its biological properties and which is nottoxic or otherwise undesirable for pharmaceutical use. Such salts may bederived from a variety of organic and inorganic counter-ions well knownin the art. Such salts include, but are not limited to: (1) acidaddition salts formed with organic or inorganic acids such ashydrochloric, hydrobromic, sulfuric, nitric, phosphoric, sulfamic,acetic, trifluoroacetic, trichloroacetic, propionic, hexanoic,cyclopentylpropionic, glycolic, glutaric, pyruvic, lactic, malonic,succinic, sorbic, ascorbic, malic, maleic, fumaric, tartaric, citric,benzoic, 3-(4-hydroxybenzoyl)benzoic, picric, cinnamic, mandelic,phthalic, lauric, methanesulfonic, ethanesulfonic,1,2-ethane-disulfonic, 2-hydroxyethanesulfonic, benzenesulfonic,4-chlorobenzenesulfonic, 2-naphthalenesulfonic, 4-toluenesulfonic,camphoric, camphorsulfonic,4-methylbicyclo[2.2.2]-oct-2-ene-1-carboxylic, glucoheptonic,3-phenylpropionic, trimethylacetic, tert-butylacetic, lauryl sulfuric,gluconic, benzoic, glutamic, hydroxynaphthoic, salicylic, stearic,cyclohexylsulfamic, quinic, muconic acid, and the like acids; or (2)base addition salts formed when an acidic proton present in the parentcompound either (a) is replaced by a metal ion, e.g., an alkali metalion, an alkaline earth ion, or an aluminum ion, or alkali metal oralkaline earth metal hydroxides, such as sodium, potassium, calcium,magnesium, aluminum, lithium, zinc, and barium hydroxide, ammonia or (b)coordinates with an organic base, such as aliphatic, alicyclic, oraromatic organic amines, such as ammonia, methylamine, dimethylamine,diethylamine, picoline, ethanolamine, diethanolamine, triethanolamine,ethylenediamine, lysine, arginine, ornithine, choline,N,N′-dibenzylethylene-diamine, chloroprocaine, diethanolamine, procaine,N-benzylphenethylamine, N-methylglucamine piperazine,tris(hydroxymethyl)-aminomethane, tetramethylammonium hydroxide, and thelike.

Pharmaceutically acceptable salts further include, by way of exampleonly and without limitation, sodium, potassium, calcium, magnesium,ammonium, tetraalkylammonium and the like, and when the compoundcontains a basic functionality, salts of non-toxic organic or inorganicacids, such as hydrohalides, e.g. hydrochloride and hydrobromide,sulfate, phosphate, sulfamate, nitrate, acetate, trifluoroacetate,trichloroacetate, propionate, hexanoate, cyclopentylpropionate,glycolate, glutarate, pyruvate, lactate, malonate, succinate, sorbate,ascorbate, malate, maleate, fumarate, tartarate, citrate, benzoate,3-(4-hydroxybenzoyl)benzoate, picrate, cinnamate, mandelate, phthalate,laurate, methanesulfonate (mesylate), ethanesulfonate,1,2-ethane-disulfonate, 2-hydroxyethanesulfonate, benzenesulfonate(besylate), 4-chlorobenzenesulfonate, 2-naphthalenesulfonate,4-toluenesulfonate, camphorate, camphorsulfonate,4-methylbicyclo[2.2.2]-oct-2-ene-1-carboxylate, glucoheptonate,3-phenylpropionate, trimethylacetate, tert-butylacetate, lauryl sulfate,gluconate, benzoate, glutamate, hydroxynaphthoate, salicylate, stearate,cyclohexylsulfamate, quinate, muconate, and the like.

As used herein, the term “nucleobase” refers to the base portion of anucleoside or nucleotide. In certain embodiments, a nucleobase is apurine or pyrimidine base, as defined herein.

The term “purine” or “pyrimidine” base refers to, but is not limited to,adenine, N⁶-alkylpurines, N⁶-acylpurines (wherein acyl is C(O)(alkyl,aryl, alkylaryl, or arylalkyl), N⁶-benzylpurine, N⁶-halopurine,N⁶-vinylpurine, N⁶-acetylenic purine, N⁶-acyl purine, N⁶-hydroxyalkylpurine, N⁶-alkylaminopurine, N⁶-thioalkyl purine, N²-alkylpurines,N²-alkyl-6-thiopurines, thymine, cytosine, 5-fluorocytosine,5-methylcytosine, 6-azapyrimidine, including 6-azacytosine, 2- and/or4-mercaptopyrmidine, uracil, 5-halouracil, including 5-fluorouracil,C⁵-alkylpyrimidines, C⁵-benzylpyrimidines, C⁵-halopyrimidines,C⁵-vinylpyrimidine, C⁵-acetylenic pyrimidine, C⁵-acyl pyrimidine,C⁵-hydroxyalkyl purine, C⁵-amidopyrimidine, C⁵-cyanopyrimidine,C⁵-iodopyrimidine, C⁶-iodo-pyrimidine, C⁵-Br-vinyl pyrimidine,C⁶-Br-vinyl pyrimidine, C⁵-nitropyrimidine, C⁵-amino-pyrimidine,N²-alkylpurines, N²-alkyl-6-thiopurines, 5-azacytidinyl, 5-azauracilyl,triazolopyridinyl, imidazolopyridinyl, pyrrolopyrimidinyl, andpyrazolopyrimidinyl. Purine bases include, but are not limited to,guanine, adenine, hypoxanthine, 7-deazaguanine, 7-deazaadenine,2,6-diaminopurine, 6-ethoxypurine, and 6-chloropurine. Functional oxygenand nitrogen groups on the base can be protected as necessary ordesired. Suitable protecting groups are well known to those skilled inthe art, and include trimethylsilyl, dimethylhexylsilyl,t-butyldimethylsilyl, and t-butyldiphenylsilyl, trityl, alkyl groups,and acyl groups such as acetyl and propionyl, methanesulfonyl, andp-toluenesulfonyl.

The term “acyl” or “O-linked ester” refers to a group of the formulaC(O)R′, wherein R′ is alkyl or cycloalkyl (including lower alkyl),carboxylate reside of amino acid, aryl including phenyl, alkaryl,arylalkyl including benzyl, alkoxyalkyl including methoxymethyl,aryloxyalkyl such as phenoxymethyl; or substituted alkyl (includinglower alkyl), aryl including phenyl optionally substituted with chloro,bromo, fluoro, iodo, C₁ to C₄ alkyl, or C₁ to C₄ alkoxy, sulfonateesters such as alkyl or arylalkyl sulphonyl including methanesulfonyl,the mono, di or triphosphate ester, trityl or monomethoxy-trityl,substituted benzyl, alkaryl, arylalkyl including benzyl, alkoxyalkylincluding methoxymethyl, aryloxyalkyl such as phenoxymethyl. Aryl groupsin the esters optimally comprise a phenyl group. In particular, acylgroups include acetyl, trifluoroacetyl, methylacetyl, cyclpropylacetyl,propionyl, butyryl, hexanoyl, heptanoyl, octanoyl, neo-heptanoyl,phenylacetyl, 2-acetoxy-2-phenylacetyl, diphenylacetyl,α-methoxy-α-trifluoromethyl-phenylacetyl, bromoacetyl,2-nitro-benzeneacetyl, 4-chloro-benzeneacetyl,2-chloro-2,2-diphenylacetyl, 2-chloro-2-phenylacetyl, trimethylacetyl,chlorodifluoroacetyl, perfluoroacetyl, fluoroacetyl,bromodifluoroacetyl, methoxyacetyl, 2-thiopheneacetyl,chlorosulfonylacetyl, 3-methoxyphenylacetyl, phenoxyacetyl,tert-butylacetyl, trichloroacetyl, monochloro-acetyl, dichloroacetyl,7H-dodecafluoro-heptanoyl, perfluoro-heptanoyl,7H-dodeca-fluoroheptanoyl, 7-chlorododecafluoro-heptanoyl,7-chloro-dodecafluoro-heptanoyl, 7H-dodecafluoroheptanoyl,7H-dodeca-fluoroheptanoyl, nona-fluoro-3,6-dioxa-heptanoyl,nonafluoro-3,6-dioxaheptanoyl, perfluoroheptanoyl, methoxybenzoyl,methyl 3-amino-5-phenylthiophene-2-carboxyl,3,6-dichloro-2-methoxy-benzoyl, 4-(1,1,2,2-tetrafluoro-ethoxy)-benzoyl,2-bromo-propionyl, omega-aminocapryl, decanoyl, n-pentadecanoyl,stearyl, 3-cyclopentyl-propionyl, 1-benzene-carboxyl, O-acetylmandelyl,pivaloyl acetyl, 1-adamantane-carboxyl, cyclohexane-carboxyl,2,6-pyridinedicarboxyl, cyclopropane-carboxyl, cyclobutane-carboxyl,perfluorocyclohexyl carboxyl, 4-methylbenzoyl, chloromethyl isoxazolylcarbonyl, perfluorocyclohexyl carboxyl, crotonyl,1-methyl-1H-indazole-3-carbonyl, 2-propenyl, isovaleryl,1-pyrrolidinecarbonyl, 4-phenylbenzoyl.

The term “amino acid” refers to naturally occurring and synthetic α, β,γ, or δ amino acids, and includes but is not limited to, amino acidsfound in proteins, i.e. glycine, alanine, valine, leucine, isoleucine,methionine, phenylalanine, tryptophan, proline, serine, threonine,cysteine, tyrosine, asparagine, glutamine, aspartate, glutamate, lysine,arginine, and histidine. In certain embodiments, the amino acid is inthe L-configuration. In certain embodiments, the amino acid is in theD-configuration. In certain embodiments, the amino acid is provided as asubstituent of a compound described herein, wherein the amino acid is aresidue selected from the group consisting of alanyl, valinyl, leucinyl,isoleuccinyl, prolinyl, phenylalaninyl, tryptophanyl, methioninyl,glycinyl, serinyl, threoninyl, cysteinyl, tyrosinyl, asparaginyl,glutaminyl, aspartoyl, glutaroyl, lysinyl, argininyl, histidinyl,β-alanyl, β-valinyl, β-leucinyl, β-isoleuccinyl, β-prolinyl,β-phenylalaninyl, β-tryptophanyl, β-methioninyl, β-glycinyl, β-serinyl,β-threoninyl, β-cysteinyl, β-tyrosinyl, β-asparaginyl, β-glutaminyl,β-aspartoyl, β-glutaroyl, β-lysinyl, β-argininyl, and β-histidinyl.

The term “amino acid derivative” refers to a group derivable from anaturally or non-naturally occurring amino acid, as described andexemplified herein. Amino acid derivatives are apparent to those ofskill in the art and include, but are not limited to, ester, aminoalcohol, amino aldehyde, amino lactone, and N-methyl derivatives ofnaturally and non-naturally occurring amino acids. In an embodiment, anamino acid derivative is provided as a substituent of a compounddescribed herein, wherein the substituent is —NR^(X)-G(S_(C))—C(O)-Q¹,wherein Q¹ is —SR^(Y), —NR^(Y)R^(Y), or alkoxyl, R^(Y) is hydrogen oralkyl, S_(C) is a side chain of a naturally occurring or non-naturallyoccurring amino acid, G is C₁-C₂ alkyl, and R_(X) is hydrogen or R_(X)and S_(C), together with the atoms to which they are attached, combineto form a five-membered heterocyclic ring. In an embodiment, an aminoacid derivative is provided as a substituent of a compound describedherein, wherein the substituent is —O—C(O)-G(S_(C))—NH-Q², wherein Q² ishydrogen or alkoxyl, S_(C) is a side chain of a naturally occurring ornon-naturally occurring amino acid and G is C₁-C₂ alkyl. In certainembodiments, Q² and S_(C), together with the atoms to which they areattached, combine to form a five-membered heterocyclic ring. In certainembodiments, G is C₁ alkyl and S_(C) is hydrogen, alkyl, arylalkyl,heterocycloalkyl, carboxylalkyl, heteroarylalkyl, aminoalkyl,hydroxylalkyl, aminoiminoaminoalkyl, aminocarbonylalkyl, sulfanylalkyl,carbamoylalkyl, alkylsulfanylalkyl, or hydroxylarylalkyl. In anembodiment, an amino acid derivative is provided as a substituent of acompound described herein, wherein the amino acid derivative is in theD-configuration. In an embodiment, an amino acid derivative is providedas a substituent of a compound described herein, wherein the amino acidderivative is in the L-configuration.

As used herein, the term “aminoalkyl” refers to an alkyl group with anamino substituent, where alkyl and amino are as described herein.

As used herein, the term “carboxylalkyl” refers to the group-alkyl-C(O)OH, where alkyl is as described herein.

As used herein, the term “aminoiminoaminoalkyl” refers to the group-alkyl-amino-C(NH)-amino, where alkyl and amino are as described herein.

As used herein, the term “aminocarbonylalkyl” refers to the group-alkyl-C(O)-amino, where alkyl and amino are as described herein.

As used herein, the term “sulfanylalkyl” refers to the group -alkyl-SH,where alkyl is as described herein.

As used herein, the term “carbamoylalkyl” refers to the group-alkyl-C(O)-amino, where alkyl and amino are as described herein.

As used herein, the term “alkylsulfanylalkyl” refers to the group-alkyl-5-alkyl, where alkyl is as described herein.

As used herein, the term “hydroxylarylalkyl” refers to the group-alkyl-aryl-OH, where alkyl and aryl are as described herein.

The term “substantially free of” or “substantially in the absence of”with respect to a nucleoside composition refers to a nucleosidecomposition that includes at least 85 or 90% by weight, in certainembodiments 95%, 98%, 99%, or 100% by weight, of the designatedenantiomer of that nucleoside. In certain embodiments of the methods andcompounds provided herein, the compounds are substantially free of anon-designated enantiomer.

Similarly, the term “isolated” with respect to a nucleoside compositionrefers to a nucleoside composition that includes at least 85%, 90%, 95%,98%, or 99% to 100% by weight, of the nucleoside, the remaindercomprising other chemical species or enantiomers.

“Solvate” refers to a compound provided herein or a salt thereof, thatfurther includes a stoichiometric or non-stoichiometric amount ofsolvent bound by non-covalent intermolecular forces. Where the solventis water, the solvate is a hydrate.

“Isotopic composition” refers to the amount of each isotope present fora given atom, and “natural isotopic composition” refers to the naturallyoccurring isotopic composition or abundance for a given atom. Atomscontaining their natural isotopic composition may also be referred toherein as “non-enriched” atoms. Unless otherwise designated, the atomsof the compounds recited herein are meant to represent any stableisotope of that atom. For example, unless otherwise stated, when aposition is designated specifically as “H” or “hydrogen,” the positionis understood to have hydrogen at its natural isotopic composition.

“Isotopic enrichment” refers to the percentage of incorporation of anamount of a specific isotope at a given atom in a molecule in the placeof that atom's natural isotopic abundance. For example, deuteriumenrichment of 1% at a given position means that 1% of the molecules in agiven sample contain deuterium at the specified position. Because thenaturally occurring distribution of deuterium is about 0.0156%,deuterium enrichment at any position in a compound synthesized usingnon-enriched starting materials is about 0.0156%. The isotopicenrichment of the compounds provided herein can be determined usingconventional analytical methods known to one of ordinary skill in theart, including mass spectrometry and nuclear magnetic resonancespectroscopy.

“Isotopically enriched” refers to an atom having an isotopic compositionother than the natural isotopic composition of that atom. “Isotopicallyenriched” may also refer to a compound containing at least one atomhaving an isotopic composition other than the natural isotopiccomposition of that atom.

As used herein, “alkyl,” “cycloalkyl,” “alkenyl,” “cycloalkenyl,”“alkynyl,” “aryl,” “alkoxy,” “alkoxycarbonyl,” “amino,” “carboxyl,”“alkylamino,” “arylamino,” “thioalkyoxy,” “heterocyclyl,” “heteroaryl,”“alkylheterocyclyl,” “alkylheteroaryl,” “acyl,” “aralkyl,” “alkaryl,”“purine,” “pyrimidine,” “carboxyl,” and “amino acid” groups optionallycomprise deuterium at one or more positions where hydrogen atoms arepresent, and wherein the deuterium composition of the atom or atoms isother than the natural isotopic composition.

Also as used herein, “alkyl,” “cycloalkyl,” “alkenyl,” “cycloalkenyl,”“alkynyl,” “aryl,” “alkoxy,” “alkoxycarbonyl,” “carboxyl,” “alkylamino,”“arylamino,” “thioalkyoxy,” “heterocyclyl,” “heteroaryl,”“alkylheterocyclyl,” “alkylheteroaryl,” “acyl,” “aralkyl,” “alkaryl,”“purine,” “pyrimidine,” “carboxyl,” and “amino acid” groups optionallycomprise carbon-13 at an amount other than the natural isotopiccomposition.

As used herein, EC₅₀ refers to a dosage, concentration or amount of aparticular test compound that elicits a dose-dependent response at 50%of maximal expression of a particular response that is induced,provoked, or potentiated by the particular test compound.

As used herein, the IC₅₀ refers to an amount, concentration or dosage ofa particular test compound that achieves a 50% inhibition of a maximalresponse in an assay that measures such response.

The term “host,” as used herein, refers to any unicellular ormulticellular organism in which the virus can replicate, including celllines and animals, and in certain embodiments, a human. Alternatively,the host can be carrying a part of the Flaviviridae viral genome, whosereplication or function can be altered by the compounds of the presentinvention. The term host specifically includes infected cells, cellstransfected with all or part of the Flaviviridae genome and animals, inparticular, primates (including chimpanzees) and humans. In most animalapplications of the present invention, the host is a human patient.Veterinary applications, in certain indications, however, are clearlyanticipated by the present invention (such as chimpanzees).

As used herein, the terms “subject” and “patient” are usedinterchangeably herein. The terms “subject” and “subjects” refer to ananimal, such as a mammal including a non-primate (e.g., a cow, pig,horse, cat, dog, rat, and mouse) and a primate (e.g., a monkey such as acynomolgous monkey, a chimpanzee, and a human), and for example, ahuman. In certain embodiments, the subject is refractory ornon-responsive to current treatments for hepatitis C infection. Inanother embodiment, the subject is a farm animal (e.g., a horse, a cow,a pig, etc.) or a pet (e.g., a dog or a cat). In certain embodiments,the subject is a human.

As used herein, the terms “therapeutic agent” and “therapeutic agents”refer to any agent(s) which can be used in the treatment or preventionof a disorder or one or more symptoms thereof. In certain embodiments,the term “therapeutic agent” includes a compound provided herein. Incertain embodiments, a therapeutic agent is an agent which is known tobe useful for, or has been or is currently being used for the treatmentor prevention of a disorder or one or more symptoms thereof.

“Therapeutically effective amount” refers to an amount of a compound orcomposition that, when administered to a subject for treating a disease,is sufficient to effect such treatment for the disease. A“therapeutically effective amount” can vary depending on, inter alia,the compound, the disease and its severity, and the age, weight, etc.,of the subject to be treated.

“Treating” or “treatment” of any disease or disorder refers, in certainembodiments, to ameliorating a disease or disorder that exists in asubject. In another embodiment, “treating” or “treatment” includesameliorating at least one physical parameter, which may be indiscernibleby the subject. In yet another embodiment, “treating” or “treatment”includes modulating the disease or disorder, either physically (e.g.,stabilization of a discernible symptom) or physiologically (e.g.,stabilization of a physical parameter) or both. In yet anotherembodiment, “treating” or “treatment” includes delaying the onset of thedisease or disorder.

As used herein, the terms “prophylactic agent” and “prophylactic agents”as used refer to any agent(s) which can be used in the prevention of adisorder or one or more symptoms thereof. In certain embodiments, theterm “prophylactic agent” includes a compound provided herein. Incertain other embodiments, the term “prophylactic agent” does not refera compound provided herein. For example, a prophylactic agent is anagent which is known to be useful for, or has been or is currently beingused to prevent or impede the onset, development, progression and/orseverity of a disorder.

As used herein, the phrase “prophylactically effective amount” refers tothe amount of a therapy (e.g., prophylactic agent) which is sufficientto result in the prevention or reduction of the development, recurrence,or onset of one or more symptoms associated with a disorder, or toenhance or improve the prophylactic effect(s) of another therapy (e.g.,another prophylactic agent).

Compounds

Provided herein are 3′-deoxy nucleoside compounds useful for thetreatment of Flaviviridae infections such as HCV infection. The 3′-deoxynucleoside compounds can be formed as described herein and used for thetreatment of Flaviviridae infections such as HCV infection.

In certain embodiments, provided herein are compounds according toFormula 3001a or 3001b:

or a pharmaceutically acceptable salt, solvate, stereoisomeric form,tautomeric form, or polymorphic form thereof, wherein:

each Base¹ is independently

or a tautomeric form thereof;

each Base² is independently

or a tautomeric form thereof;

each R⁴ is independently hydrogen, hydroxyl, amino, halo, or alkoxyl;

each R⁵ is independently hydrogen, hydroxyl, amino, or alkoxyl;

each R⁶ is independently hydrogen, halogen, or alkyl;

each R⁷ is independently hydrogen or amino;

each R⁸ is independently hydrogen, amino, halo, or C₂₋₆ alkoxyl;

each R⁹ is independently hydrogen or amino;

PD is hydrogen,

W is S or O;

each of X and Y is independently hydrogen, —OR¹, —SR¹, —NR¹R², anN-linked or O-linked amino acid residue, or a derivative thereof;

each R¹ is independently hydrogen, alkyl, aryl, heteroaryl, arylalkyl,cycloalkyl, heterocycloalkyl, alkoxylcarbonylalkyl, oralkylcarbonylthioalkyl; and

each R² is independently hydrogen, alkyl, cycloalkyl, aryl, orarylalkyl. In certain embodiments, provided herein are compoundsaccording to Formula 3001ai or 3001 aii:

or a pharmaceutically acceptable salt, solvate, stereoisomeric form,tautomeric form, or polymorphic form thereof, wherein W and Base¹ are asdescribed in the context of Formula 3001a.

In certain embodiments, provided herein are compounds according toFormula 2001a or 2001b:

or a pharmaceutically acceptable salt, solvate, stereoisomeric form,tautomeric form or polymorphic form thereof, wherein: each Base¹ isindependently

or a tautomeric form thereof; each Base² is independently

or a tautomeric form thereof; each R⁴ is independently hydrogen,hydroxyl, amino, halo or alkoxyl; each R⁵ is independently hydrogen,hydroxyl, amino or alkoxyl; each R⁶ is independently hydrogen, halogen,or alkyl; each R⁷ is independently hydrogen or —NH₂; PD is hydrogen,

W is S or O; each of X and Y is independently hydrogen, —OR¹, —SR¹,—NR¹R², or an N-linked amino acid, or ester thereof; each R¹ isindependently hydrogen, alkyl, cycloalkyl, aryl, heteroaryl, arylalkyl,or heteroarylalkyl; and each R² is independently hydrogen or alkyl.

In certain embodiments, provided herein are compounds according toFormula Ia or Ib:

or a pharmaceutically acceptable salt, solvate, stereoisomeric form,tautomeric form or polymorphic form thereof, wherein: each Base¹ isindependently

or a tautomeric form thereof; each Base² is independently

or a tautomeric form thereof; each R⁴ is independently hydrogen,hydroxyl, amino, or alkoxyl; each R⁵ is independently hydrogen,hydroxyl, or alkoxyl; each R⁶ is independently hydrogen, halogen, oralkyl; each R⁷ is independently hydrogen or —NH₂; PD is hydrogen,

W is S or O; each of X and Y is independently hydrogen, —OR¹, —SR¹,—NR¹R², or an N-linked amino acid, or ester thereof; each R¹ isindependently hydrogen, alkyl, cycloalkyl, aryl, heteroaryl, arylalkyl,or heteroarylalkyl; and each R² is independently hydrogen or alkyl.

In certain embodiments, provided herein are compounds according toFormula II:

or a pharmaceutically acceptable salt, solvate, stereoisomeric form,tautomeric form or polymorphic form thereof, wherein W, X, Y, and Base²are defined as described in the context of formula I or formula 2001.

In certain embodiments, a compound of formula 2001b, formula Ib orformula II is provided wherein W is O. In certain embodiments, acompound of formula 2001b, formula Ib or formula II is provided whereinW is S.

In certain embodiments, provided is a compound of formula III or IV:

or a pharmaceutically acceptable salt, solvate, stereoisomeric form,tautomeric form or polymorphic form thereof, wherein: each Ar¹ isindependently aryl or heteroaryl; each R³ is independently alkyl; andBase² and Y are as described in the context of formula 2001b. In certainembodiments, a compound of formula III or IV is provided wherein R³ isbranched hydroxyalkyl; and Base² and Y are as described in the contextof formula 2001b. In certain embodiments, a compound of formula III orIV is provided wherein R³ is —C(CH₃)₂CH₂OH; and Base² and Y are asdescribed in the context of formula 2001b.

In certain embodiments, provided is a compound of formula III or IV:

or a pharmaceutically acceptable salt, solvate, stereoisomeric form,tautomeric form or polymorphic form thereof, wherein: each Ar¹ isindependently aryl or heteroaryl; and each R³ is independently alkyl. Incertain embodiments, a compound of formula III or IV is provided whereinR³ is branched hydroxyalkyl. In certain embodiments, a compound offormula III or IV is provided wherein R³ is —C(CH₃)₂CH₂OH.

In certain embodiments, a compound of any of Formulas Ib, II, III, or IVis provided wherein: each R⁴ is independently hydrogen, hydroxyl, amino,or alkoxyl; each R⁵ is independently hydrogen, hydroxyl, or alkoxyl;each R⁶ is independently hydrogen, halogen, or alkyl; and each R⁷ isindependently hydrogen or —NH₂. In an embodiment, a compound of any ofFormulas Ib, II, III, or IV is provided wherein each Base² is uracil.

In certain embodiments, a compound of any of Formulas 3001b, 2001b, Ib,II, III, or IV is provided wherein: each R⁴ is independently hydrogen,hydroxyl, amino, halo, or alkoxyl; each R⁵ is independently hydrogen,hydroxyl, amino, or alkoxyl; each R⁶ is independently hydrogen, halogen,or alkyl; and each R⁷ is independently hydrogen or —NH₂. In anembodiment, a compound of any of Formulas 3001b, 2001b, Ib, II, III, orIV is provided wherein each Base² is uracil. In an embodiment, acompound of any of Formulas 3001b, 2001b, Ib, II, III, or IV is providedwherein each Base² is 5-fluorouracil. In an embodiment, a compound ofany of Formulas 3001b, 2001b, Ib, II, III, or IV is provided whereineach Base² is thymine. In an embodiment, a compound of any of Formulas3001b, 2001b, Ib, II, III, or IV is provided wherein each Base² iscytosine. In an embodiment, a compound of Formula 3001b, 2001b, Ib, II,III, or IV is provided wherein each Base² is 6-ethoxyguanine. On anembodiment, a compound of any of Formulas 3001b, 2001b, Ib, II, III, orIV is provided wherein each Base² is 2,6-diaminopurine. In anembodiment, a compound of any of Formulas 3001b, 2001b, Ib, II, III, orIV is provided wherein each Base² is adenine.

In certain embodiments, a compound of Formula 3001b is provided wherein:each R⁸ is independently hydrogen, amino, halo, or C₂₋₆ alkoxyl; andeach R⁹ is independently hydrogen or amino. In certain embodiments, acompound of Formula 3001b is provided wherein: each R⁸ is independentlyamino or C₂₋₆ alkoxyl; and each R⁹ is independently hydrogen or amino.In an embodiment, a compound of Formula 3001b, 2001b, Ib, II, III, or IVis provided wherein each Base² is 6-ethoxyguanine. In an embodiment, acompound of any of Formulas 3001b, 2001b, Ib, II, III, or IV is providedwherein each Base² is 2,6-diaminopurine. In an embodiment, a compound ofany of Formulas 3001b, 2001b, Ib, II, III, or IV is provided whereineach Base² is adenine.

In certain embodiments, a compound of any of Formulas 3001a, 2001a, orIa is provided wherein each Base¹ is independently adenine, guanine,thymine, cytosine, or uracil. In certain embodiments, a compound ofFormula 3001a, 2001a, or Ia is provided wherein each Base¹ isindependently uracil. In certain embodiments, a compound of Formula3001a, 2001a, or Ia is provided wherein each Base¹ is independently5-fluorouracil. In certain embodiments, a compound of Formula 3001a,2001a, or Ia is provided wherein each Base¹ is independently2,6-diaminopurine. In certain embodiments, a compound of Formula 3001a,2001a, or Ia is provided wherein each Base¹ is independently6-chloropurine. In certain embodiments, a compound of Formula 3001a,2001a, or Ia is provided wherein each Base¹ is independentlyN⁶-halopurine.

In certain embodiments, provided is a compound according to any ofFormulas V-VIII:

or a pharmaceutically acceptable salt, solvate, stereoisomeric form,tautomeric form, or polymorphic form thereof, wherein: W, X, and Y areas defined in the context of Formula Ib, Formula 2001b, or Formula3001b; and each R⁶ is independently hydrogen, halogen, or alkyl. Incertain embodiments, a compound of any of Formulas V-VIII is providedwherein each R⁶ is independently halo. In certain embodiments, acompound of any of Formulas V-VIII is provided wherein each R⁶ isfluoro.

In certain embodiments, provided is a compound according to any ofFormulas Formulas IX-XII:

or a pharmaceutically acceptable salt, solvate, stereoisomeric form,tautomeric form, or polymorphic form thereof, wherein W, X, and Y aredefined as described in the context of formula Ib, formula 2001b, orFormula 3001b.

In certain embodiments, provided herein are compounds according toFormula Ia:

or a pharmaceutically acceptable salt, solvate, stereoisomeric form,tautomeric form, or polymorphic form thereof, wherein Base¹ is definedas described in the context of Formula Ia, 2001a, or 3001a.

In certain embodiments, provided herein are compounds according toFormula Iai or Iaii:

or a pharmaceutically acceptable salt, solvate, stereoisomeric form,tautomeric form, or polymorphic form thereof, wherein Base¹ is definedas described in the context of formula Ia, formula 2001a, or Formula3001a.

In certain embodiments, provided herein are compounds according toFormula IIa or IIb:

or a pharmaceutically acceptable salt, solvate, stereoisomeric form,tautomeric form, or polymorphic form thereof, wherein Base² is definedas described in the context of Formula 2001b or Formula 3001b.

In certain embodiments, provided herein are compounds according toFormula IIai or IIbii:

or a pharmaceutically acceptable salt, solvate, stereoisomeric form,tautomeric form, or polymorphic form thereof, wherein Base² is definedas described in the context of formula 2001b or Formula 3001b.

In certain embodiments, provided herein are compounds according to anyof Formulas 1a-4:

or a pharmaceutically acceptable salt, solvate, stereoisomeric form,tautomeric form, or polymorphic form thereof.

In certain embodiments, provided herein is a compound according toformula 2:

or a pharmaceutically acceptable salt, solvate, stereoisomeric form,tautomeric form, or polymorphic form thereof.

In certain embodiments, provided herein are compounds according to anyof formulas 2b-4-bii:

or a pharmaceutically acceptable salt, solvate, stereoisomeric form,tautomeric form, or polymorphic form thereof.

In certain embodiments, provided herein are compounds according to anyof formulas 3b-4-bii:

or a pharmaceutically acceptable salt, solvate, stereoisomeric form,tautomeric form, or polymorphic form thereof.

In certain embodiments, provided herein are compounds according to anyof formulas 1a-4-aii:

or a pharmaceutically acceptable salt, solvate, stereoisomeric form,tautomeric form, or polymorphic form thereof.

In certain embodiments, provided herein are compounds according toFormula 102:

or a pharmaceutically acceptable salt, solvate, stereoisomeric form,tautomeric form, or polymorphic form thereof.

In certain embodiments, provided herein is a compound according to anyof formulas 202-205:

or a pharmaceutically acceptable salt, solvate, stereoisomeric form,tautomeric form, or polymorphic form thereof.

In certain embodiments, provided herein are compounds according toFormula 1001a or 1001b:

or a pharmaceutically acceptable salt, solvate, stereoisomeric form,tautomeric form, or polymorphic form thereof, wherein: PD is hydrogen,

W is S or O; each of X and Y is independently hydrogen, —OR¹, —SR¹,—NR¹R², or an N-linked amino acid, or ester thereof; each R¹ isindependently hydrogen, alkyl, cycloalkyl, aryl, heteroaryl, arylalkyl,or heteroarylalkyl; and each R² is independently hydrogen or alkyl.

In certain embodiments, provided herein are compounds according to anyof Formula 1002-1004:

or a pharmaceutically acceptable salt, solvate, stereoisomeric form,tautomeric form, or polymorphic form thereof.

In some embodiments, provided herein are:

-   (a) compounds as described herein, e.g., of Formula 3001a-b,    2001a-b, Ia-XII, 1a-4-bii, 102, 202-205, or 1001-1004, and    pharmaceutically acceptable salts and compositions thereof;-   (b) compounds as described herein, e.g., of Formula 3001a-b,    2001a-b, Ia-XII, 1a-4-bii, 102, 202-205, or 1001-1004, and    pharmaceutically acceptable salts and compositions thereof for use    in the treatment and/or prophylaxis of a liver disorder including    Flaviviridae infection, especially in individuals diagnosed as    having a Flaviviridae infection or being at risk of becoming    infected by hepatitis C;-   (c) processes for the preparation of compounds as described herein,    e.g., of Formula 3001a-b, 2001a-b, Ia-XII, 1a-4-bii, 102, 202-205,    or 1001-1004, as described in more detail elsewhere herein;-   (d) pharmaceutical formulations comprising a compound as described    herein, e.g., of Formula 3001a-b, 2001a-b, Ia-XII, 1a-4-bii, 102,    202-205, or 1001-1004, or a pharmaceutically acceptable salt thereof    together with a pharmaceutically acceptable carrier or diluent;-   (e) pharmaceutical formulations comprising a compound as described    herein, e.g., of Formula 3001a-b, 2001a-b, Ia-XII, 1a-4-bii, 102,    202-205, or 1001-1004, or a pharmaceutically acceptable salt thereof    together with one or more other effective anti-HCV agents,    optionally in a pharmaceutically acceptable carrier or diluent;-   (f) a method for the treatment and/or prophylaxis of a host infected    with Flaviviridae that includes the administration of an effective    amount of a compound as described herein, e.g., of Formula 3001a-b,    2001a-b, Ia-XII, 1a-4-bii, 102, 202-205, or 1001-1004, its    pharmaceutically acceptable salt or composition; or-   (g) a method for the treatment and/or prophylaxis of a host infected    with Flaviviridae that includes the administration of an effective    amount of a compound as described herein, e.g., of Formula 3001a-b,    2001a-b, Ia-XII, 1a-4-bii, 102, 202-205, or 1001-1004, its    pharmaceutically acceptable salt or composition in combination    and/or alternation with one or more effective anti-HCV agent.

Optically Active Compounds

It is appreciated that compounds provided herein have several chiralcenters and may exist in, and be isolated in, optically active andracemic forms. Some compounds may exhibit polymorphism. It is to beunderstood that any racemic, optically-active, diastereomeric,polymorphic, or stereoisomeric form, or mixtures thereof, of a compoundprovided herein, which possess the useful properties described herein iswithin the scope of the invention. It being well known in the art how toprepare optically active forms (for example, by resolution of theracemic form by recrystallization techniques, by synthesis fromoptically-active starting materials, by chiral synthesis, or bychromatographic separation using a chiral stationary phase).

In particular, since the 1′ and 4′ carbons of a nucleoside are chiral,the nucleobase and the CH₂OPD groups can be either cis (on the sameside) or trans (on opposite sides) with respect to the sugar ringsystem. The four optical isomers therefore are represented by thefollowing configurations (when orienting the sugar moiety in ahorizontal plane such that the oxygen atom is in the back): cis (withboth groups “up”, which corresponds to the configuration of naturallyoccurring B-D nucleosides), cis (with both groups “down”, which is anon-naturally occurring B-L configuration), trans (with the CTsubstituent “up” and the C4′ substituent “down”), and trans (with the CTsubstituent “down” and the C4′ substituent “up”). The “D-nucleosides”are cis nucleosides in a natural configuration and the “L-nucleosides”are cis nucleosides in the non-naturally occurring configuration.

Likewise, most amino acids are chiral (designated as L or D, wherein theL enantiomer is the naturally occurring configuration) and can exist asseparate enantiomers.

Examples of methods to obtain optically active materials are known inthe art, and include at least the following.

-   -   i) physical separation of crystals—a technique whereby        macroscopic crystals of the individual enantiomers are manually        separated. This technique can be used if crystals of the        separate enantiomers exist, i.e., the material is a        conglomerate, and the crystals are visually distinct;    -   ii) simultaneous crystallization—a technique whereby the        individual enantiomers are separately crystallized from a        solution of the racemate, possible only if the latter is a        conglomerate in the solid state;    -   iii) enzymatic resolutions—a technique whereby partial or        complete separation of a racemate by virtue of differing rates        of reaction for the enantiomers with an enzyme;    -   iv) enzymatic asymmetric synthesis—a synthetic technique whereby        at least one step of the synthesis uses an enzymatic reaction to        obtain an enantiomerically pure or enriched synthetic precursor        of the desired enantiomer;    -   v) chemical asymmetric synthesis—a synthetic technique whereby        the desired enantiomer is synthesized from an achiral precursor        under conditions that produce asymmetry (i.e., chirality) in the        product, which may be achieved using chiral catalysts or chiral        auxiliaries;    -   vi) diastereomer separations—a technique whereby a racemic        compound is reacted with an enantiomerically pure reagent (the        chiral auxiliary) that converts the individual enantiomers to        diastereomers. The resulting diastereomers are then separated by        chromatography or crystallization by virtue of their now more        distinct structural differences and the chiral auxiliary later        removed to obtain the desired enantiomer;    -   vii) first- and second-order asymmetric transformations—a        technique whereby diastereomers from the racemate equilibrate to        yield a preponderance in solution of the diastereomer from the        desired enantiomer or where preferential crystallization of the        diastereomer from the desired enantiomer perturbs the        equilibrium such that eventually in principle all the material        is converted to the crystalline diastereomer from the desired        enantiomer. The desired enantiomer is then released from the        diastereomer;    -   viii) kinetic resolutions—this technique refers to the        achievement of partial or complete resolution of a racemate (or        of a further resolution of a partially resolved compound) by        virtue of unequal reaction rates of the enantiomers with a        chiral, non-racemic reagent or catalyst under kinetic        conditions;    -   ix) enantiospecific synthesis from non-racemic precursors—a        synthetic technique whereby the desired enantiomer is obtained        from non-chiral starting materials and where the stereochemical        integrity is not or is only minimally compromised over the        course of the synthesis;    -   x) chiral liquid chromatography—a technique whereby the        enantiomers of a racemate are separated in a liquid mobile phase        by virtue of their differing interactions with a stationary        phase. The stationary phase can be made of chiral material or        the mobile phase can contain an additional chiral material to        provoke the differing interactions;    -   xi) chiral gas chromatography—a technique whereby the racemate        is volatilized and enantiomers are separated by virtue of their        differing interactions in the gaseous mobile phase with a column        containing a fixed non-racemic chiral adsorbent phase;    -   xii) extraction with chiral solvents—a technique whereby the        enantiomers are separated by virtue of preferential dissolution        of one enantiomer into a particular chiral solvent;    -   xiii) transport across chiral membranes—a technique whereby a        racemate is placed in contact with a thin membrane barrier. The        barrier typically separates two miscible fluids, one containing        the racemate, and a driving force such as concentration or        pressure differential causes preferential transport across the        membrane barrier. Separation occurs as a result of the        non-racemic chiral nature of the membrane which allows only one        enantiomer of the racemate to pass through.

In some embodiments, provided is a composition a of 3′-deoxy nucleosidecompound that comprises a substantially pure designated enantiomer ofthe 3′-deoxy nucleoside compound. In certain embodiments, in the methodsand compounds of this invention, the compounds are substantially free ofother enantiomers. In some embodiments, a composition includes acompound that is at least 85%, 90%, 95%, 98%, 99%, or 100% by weight ofthe 3′-deoxy nucleoside compound, the remainder comprising otherchemical species or enantiomers.

Isotopically Enriched Compounds

Also provided herein are isotopically enriched compounds, including butnot limited to isotopically enriched 3′-deoxy nucleoside compounds.

Isotopic enrichment (for example, deuteration) of pharmaceuticals toimprove pharmacokinetics (“PK”), pharmacodynamics (“PD”), and toxicityprofiles, has been demonstrated previously with some classes of drugs.See, for example, Lijinsky et. al., Food Cosmet. Toxicol., 20: 393(1982); Lijinsky et. al., J. Nat. Cancer Inst., 69: 1127 (1982); Mangoldet. al., Mutation Res. 308: 33 (1994); Gordon et. al., Drug Metab.Dispos., 15: 589 (1987); Zello et. al., Metabolism, 43: 487 (1994);Gately et. al., J. Nucl. Med., 27: 388 (1986); Wade D, Chem. Biol.Interact. 117: 191 (1999).

Isotopic enrichment of a drug can be used, for example, to (1) reduce oreliminate unwanted metabolites, (2) increase the half-life of the parentdrug, (3) decrease the number of doses needed to achieve a desiredeffect, (4) decrease the amount of a dose necessary to achieve a desiredeffect, (5) increase the formation of active metabolites, if any areformed, and/or (6) decrees the production of deleterious metabolites inspecific tissues and/or create a more effective drug and/or a safer drugfor combination therapy, whether the combination therapy is intentionalor not.

Replacement of an atom for one of its isotopes often will result in achange in the reaction rate of a chemical reaction. This phenomenon isknown as the Kinetic Isotope Effect (“KIE”). For example, if a C—H bondis broken during a rate-determining step in a chemical reaction (i.e.the step with the highest transition state energy), substitution of adeuterium for that hydrogen will cause a decrease in the reaction rateand the process will slow down. This phenomenon is known as theDeuterium Kinetic Isotope Effect (“DKIE”). See, e.g., Foster et al.,Adv. Drug Res., vol. 14, pp. 1-36 (1985); Kushner et al., Can. J.Physiol. Pharmacol., vol. 77, pp. 79-88 (1999).

The magnitude of the DKIE can be expressed as the ratio between therates of a given reaction in which a C—H bond is broken, and the samereaction where deuterium is substituted for hydrogen. The DKIE can rangefrom about 1 (no isotope effect) to very large numbers, such as 50 ormore, meaning that the reaction can be fifty, or more, times slower whendeuterium is substituted for hydrogen. High DKIE values may be due inpart to a phenomenon known as tunneling, which is a consequence of theuncertainty principle. Tunneling is ascribed to the small mass of ahydrogen atom, and occurs because transition states involving a protoncan sometimes form in the absence of the required activation energy.Because deuterium has more mass than hydrogen, it statistically has amuch lower probability of undergoing this phenomenon.

Tritium (“T”) is a radioactive isotope of hydrogen, used in research,fusion reactors, neutron generators and radiopharmaceuticals. Tritium isa hydrogen atom that has 2 neutrons in the nucleus and has an atomicweight close to 3. It occurs naturally in the environment in very lowconcentrations, most commonly found as T₂O. Tritium decays slowly(half-life=12.3 years) and emits a low energy beta particle that cannotpenetrate the outer layer of human skin. Internal exposure is the mainhazard associated with this isotope, yet it must be ingested in largeamounts to pose a significant health risk. As compared with deuterium, alesser amount of tritium must be consumed before it reaches a hazardouslevel. Substitution of tritium (“T”) for hydrogen results in yet astronger bond than deuterium and gives numerically larger isotopeeffects. Similarly, substitution of isotopes for other elements,including, but not limited to, ¹³C or ¹⁴C for carbon, ³³S, ³⁴S, or ³⁶Sfor sulfur, ¹⁵N for nitrogen, and ¹⁷O or ¹⁸O for oxygen, may lead to asimilar kinetic isotope effect.

For example, the DKIE was used to decrease the hepatotoxicity ofhalothane by presumably limiting the production of reactive species suchas trifluoroacetyl chloride. However, this method may not be applicableto all drug classes. For example, deuterium incorporation can lead tometabolic switching. The concept of metabolic switching asserts thatxenogens, when sequestered by Phase I enzymes, may bind transiently andre-bind in a variety of conformations prior to the chemical reaction(e.g., oxidation). This hypothesis is supported by the relatively vastsize of binding pockets in many Phase I enzymes and the promiscuousnature of many metabolic reactions. Metabolic switching can potentiallylead to different proportions of known metabolites as well as altogethernew metabolites. This new metabolic profile may impart more or lesstoxicity.

The animal body expresses a variety of enzymes for the purpose ofeliminating foreign substances, such as therapeutic agents, from itscirculation system. Examples of such enzymes include the cytochrome P450enzymes (“CYPs”), esterases, proteases, reductases, dehydrogenases, andmonoamine oxidases, to react with and convert these foreign substancesto more polar intermediates or metabolites for renal excretion. Some ofthe most common metabolic reactions of pharmaceutical compounds involvethe oxidation of a carbon-hydrogen (C—H) bond to either a carbon-oxygen(C—O) or carbon-carbon (C—C) pi-bond. The resultant metabolites may bestable or unstable under physiological conditions, and can havesubstantially different pharmacokinetic, pharmacodynamic, and acute andlong-term toxicity profiles relative to the parent compounds. For manydrugs, such oxidations are rapid. These drugs therefore often requirethe administration of multiple or high daily doses.

Therefore, isotopic enrichment at certain positions of a compoundprovided herein will produce a detectable KIE that will affect thepharmacokinetic, pharmacologic, and/or toxicological profiles of acompound provided herein in comparison with a similar compound having anatural isotopic composition.

Preparation of Compounds

The compounds provided herein can be prepared, isolated, or obtained byany method apparent to those of skill in the art. Compounds providedherein can be prepared according to the Exemplary Preparation Schemesprovided below. Reaction conditions, steps, and reactants not providedin the Exemplary Preparation Schemes would be apparent to, and known by,those skilled in the art.

In the Exemplary Preparation Schemes, Base¹, Base², W, X, and Y are asdefined in the context of formulas Ia, Ib, 2001a, 2001b, 3001a, or3001b. Additional steps and reagents not provided in the ExemplaryPreparation Scheme would be known to those of skill in the art.Exemplary methods of preparation are described in detail in the examplesbelow.

Pharmaceutical Compositions and Methods of Administration

3′-Deoxy nucleoside compounds can be formulated into pharmaceuticalcompositions using methods available in the art and those disclosedherein. Any of the compounds disclosed herein can be provided in theappropriate pharmaceutical composition and be administered by a suitableroute of administration.

The methods provided herein encompass administering pharmaceuticalcompositions containing at least one compound as described herein,including a compound of general Formula 3001a-b, 2001a-b, Ia-XII,1a-4-bii, 102, 202-205, or 1001-1004, if appropriate in the salt form,either used alone or in the form of a combination with one or morecompatible and pharmaceutically acceptable carriers, such as diluents oradjuvants, or with another anti-HCV agent.

In certain embodiments, the second agent can be formulated or packagedwith the compound provided herein. Of course, the second agent will onlybe formulated with the compound provided herein when, according to thejudgment of those of skill in the art, such co-formulation should notinterfere with the activity of either agent or the method ofadministration. In certain embodiments, the compound provided herein andthe second agent are formulated separately. They can be packagedtogether, or packaged separately, for the convenience of thepractitioner of skill in the art.

In clinical practice the active agents provided herein may beadministered by any conventional route, in particular orally,parenterally, rectally, or by inhalation (e.g. in the form of aerosols).In certain embodiments, the compound provided herein is administeredorally.

Use may be made, as solid compositions for oral administration, oftablets, pills, hard gelatin capsules, powders, or granules. In thesecompositions, the active product is mixed with one or more inertdiluents or adjuvants, such as sucrose, lactose, or starch.

These compositions can comprise substances other than diluents, forexample a lubricant, such as magnesium stearate, or a coating intendedfor controlled release.

Use may be made, as liquid compositions for oral administration, ofsolutions which are pharmaceutically acceptable, suspensions, emulsions,syrups and elixirs containing inert diluents, such as water or liquidparaffin. These compositions can also comprise substances other thandiluents, for example wetting, sweetening, or flavoring products.

The compositions for parenteral administration can be emulsions orsterile solutions. Use may be made, as solvent or vehicle, of propyleneglycol, a polyethylene glycol, vegetable oils, in particular olive oil,or injectable organic esters, for example ethyl oleate. Thesecompositions can also contain adjuvants, in particular wetting,isotonizing, emulsifying, dispersing, and stabilizing agents.Sterilization can be carried out in several ways, for example using abacteriological filter, by radiation or by heating. They can also beprepared in the form of sterile solid compositions which can bedissolved at the time of use in sterile water or any other injectablesterile medium.

The compositions for rectal administration are suppositories or rectalcapsules which contain, in addition to the active principle, excipientssuch as cocoa butter, semi-synthetic glycerides or polyethylene glycols.

The compositions can also be aerosols. For use in the form of liquidaerosols, the compositions can be stable sterile solutions or solidcompositions dissolved at the time of use in apyrogenic sterile water,in saline or any other pharmaceutically acceptable vehicle. For use inthe form of dry aerosols intended to be directly inhaled, the activeprinciple is finely divided and combined with a water-soluble soliddiluent or vehicle, for example dextran, mannitol or lactose.

In certain embodiments, a composition provided herein is apharmaceutical composition or a single unit dosage form. Pharmaceuticalcompositions and single unit dosage forms provided herein comprise aprophylactically or therapeutically effective amount of one or moreprophylactic or therapeutic agents (e.g., a compound provided herein, orother prophylactic or therapeutic agent), and a typically one or morepharmaceutically acceptable carriers or excipients. In a specificembodiment and in this context, the term “pharmaceutically acceptable”means approved by a regulatory agency of the Federal or a stategovernment or listed in the U.S. Pharmacopeia or other generallyrecognized pharmacopeia for use in animals, and more particularly inhumans. The term “carrier” includes a diluent, adjuvant (e.g., Freund'sadjuvant (complete and incomplete)), excipient, or vehicle with whichthe therapeutic is administered. Such pharmaceutical carriers can besterile liquids, such as water and oils, including those of petroleum,animal, vegetable, or synthetic origin, such as peanut oil, soybean oil,mineral oil, sesame oil, and the like. Water can be used as a carrierwhen the pharmaceutical composition is administered intravenously.Saline solutions and aqueous dextrose and glycerol solutions can also beemployed as liquid carriers, particularly for injectable solutions.Examples of suitable pharmaceutical carriers are described in“Remington's Pharmaceutical Sciences” by E. W. Martin.

Typical pharmaceutical compositions and dosage forms comprise one ormore excipients. Suitable excipients are well-known to those skilled inthe art of pharmacy, and non-limiting examples of suitable excipientsinclude starch, glucose, lactose, sucrose, gelatin, malt, rice, flour,chalk, silica gel, sodium stearate, glycerol monostearate, talc, sodiumchloride, dried skim milk, glycerol, propylene, glycol, water, ethanol,and the like. Whether a particular excipient is suitable forincorporation into a pharmaceutical composition or dosage form dependson a variety of factors well known in the art including, but not limitedto, the way in which the dosage form will be administered to a subjectand the specific active ingredients in the dosage form. The compositionor single unit dosage form, if desired, can also contain minor amountsof wetting or emulsifying agents, or pH buffering agents.

Lactose free compositions provided herein can comprise excipients thatare well known in the art and are listed, for example, in the U.S.Pharmocopia (USP)SP(XXI)/NF (XVI). In general, lactose free compositionscomprise an active ingredient, a binder/filler, and a lubricant inpharmaceutically compatible and pharmaceutically acceptable amounts.Exemplary lactose free dosage forms comprise an active ingredient,microcrystalline cellulose, pre gelatinized starch, and magnesiumstearate.

Further encompassed herein are anhydrous pharmaceutical compositions anddosage forms comprising active ingredients, since water can facilitatethe degradation of some compounds. For example, the addition of water(e.g., 5%) is widely accepted in the pharmaceutical arts as a means ofsimulating long term storage in order to determine characteristics suchas shelf life or the stability of formulations over time. See, e.g.,Jens T. Carstensen, Drug Stability: Principles & Practice, 2d. Ed.,Marcel Dekker, New York, 1995, pp. 379 80. In effect, water and heataccelerate the decomposition of some compounds. Thus, the effect ofwater on a formulation can be of great significance since moistureand/or humidity are commonly encountered during manufacture, handling,packaging, storage, shipment, and use of formulations.

Anhydrous pharmaceutical compositions and dosage forms provided hereincan be prepared using anhydrous or low moisture containing ingredientsand low moisture or low humidity conditions. Pharmaceutical compositionsand dosage forms that comprise lactose and at least one activeingredient that comprises a primary or secondary amine can be anhydrousif substantial contact with moisture and/or humidity duringmanufacturing, packaging, and/or storage is expected.

An anhydrous pharmaceutical composition should be prepared and storedsuch that its anhydrous nature is maintained. Accordingly, anhydrouscompositions can be packaged using materials known to prevent exposureto water such that they can be included in suitable formulary kits.Examples of suitable packaging include, but are not limited to,hermetically sealed foils, plastics, unit dose containers (e.g., vials),blister packs, and strip packs.

Further provided are pharmaceutical compositions and dosage forms thatcomprise one or more compounds that reduce the rate by which an activeingredient will decompose. Such compounds, which are referred to hereinas “stabilizers,” include, but are not limited to, antioxidants such asascorbic acid, pH buffers, or salt buffers.

The pharmaceutical compositions and single unit dosage forms can takethe form of solutions, suspensions, emulsion, tablets, pills, capsules,powders, sustained-release formulations, and the like. Oral formulationcan include standard carriers such as pharmaceutical grades of mannitol,lactose, starch, magnesium stearate, sodium saccharine, cellulose,magnesium carbonate, etc. Such compositions and dosage forms willcontain a prophylactically or therapeutically effective amount of aprophylactic or therapeutic agent, in certain embodiments, in purifiedform, together with a suitable amount of carrier so as to provide theform for proper administration to the subject. The formulation shouldsuit the mode of administration. In a certain embodiment, thepharmaceutical compositions or single unit dosage forms are sterile andin suitable form for administration to a subject, for example, an animalsubject, such as a mammalian subject, for example, a human subject.

A pharmaceutical composition is formulated to be compatible with itsintended route of administration. Examples of routes of administrationinclude, but are not limited to, parenteral, e.g., intravenous,intradermal, subcutaneous, intramuscular, subcutaneous, oral, buccal,sublingual, inhalation, intranasal, transdermal, topical, transmucosal,intra-tumoral, intra-synovial, and rectal administration. In a specificembodiment, the composition is formulated in accordance with routineprocedures as a pharmaceutical composition adapted for intravenous,subcutaneous, intramuscular, oral, intranasal, or topical administrationto human beings. In an embodiment, a pharmaceutical composition isformulated in accordance with routine procedures for subcutaneousadministration to human beings. Typically, compositions for intravenousadministration are solutions in sterile isotonic aqueous buffer. Wherenecessary, the composition may also include a solubilizing agent and alocal anesthetic such as lignocamne to ease pain at the site of theinjection.

Examples of dosage forms include, but are not limited to: tablets;caplets; capsules, such as soft elastic gelatin capsules; cachets;troches; lozenges; dispersions; suppositories; ointments; cataplasms(poultices); pastes; powders; dressings; creams; plasters; solutions;patches; aerosols (e.g., nasal sprays or inhalers); gels; liquid dosageforms suitable for oral or mucosal administration to a subject,including suspensions (e.g., aqueous or non-aqueous liquid suspensions,oil in water emulsions, or a water in oil liquid emulsions), solutions,and elixirs; liquid dosage forms suitable for parenteral administrationto a subject; and sterile solids (e.g., crystalline or amorphous solids)that can be reconstituted to provide liquid dosage forms suitable forparenteral administration to a subject.

The composition, shape, and type of dosage forms provided herein willtypically vary depending on their use. For example, a dosage form usedin the initial treatment of viral infection may contain larger amountsof one or more of the active ingredients it comprises than a dosage formused in the maintenance treatment of the same infection. Similarly, aparenteral dosage form may contain smaller amounts of one or more of theactive ingredients it comprises than an oral dosage form used to treatthe same disease or disorder. These and other ways in which specificdosage forms encompassed herein will vary from one another will bereadily apparent to those skilled in the art. See, e.g., Remington'sPharmaceutical Sciences, 20th ed., Mack Publishing, Easton Pa. (2000).

Generally, the ingredients of compositions are supplied eitherseparately or mixed together in unit dosage form, for example, as a drylyophilized powder or water free concentrate in a hermetically sealedcontainer such as an ampoule or sachette indicating the quantity ofactive agent. Where the composition is to be administered by infusion,it can be dispensed with an infusion bottle containing sterilepharmaceutical grade water or saline. Where the composition isadministered by injection, an ampoule of sterile water for injection orsaline can be provided so that the ingredients may be mixed prior toadministration.

Typical dosage forms comprise a compound provided herein, or apharmaceutically acceptable salt, solvate, or hydrate thereof lie withinthe range of from about 0.1 mg to about 1000 mg per day, given as asingle once-a-day dose in the morning or as divided doses throughout theday taken with food. Particular dosage forms can have about 0.1, 0.2,0.3, 0.4, 0.5, 1.0, 2.0, 2.5, 5.0, 10.0, 15.0, 20.0, 25.0, 50.0, 100,200, 250, 500, or 1000 mg of the active compound.

Oral Dosage Forms

Pharmaceutical compositions that are suitable for oral administrationcan be presented as discrete dosage forms, such as, but are not limitedto, tablets (e.g., chewable tablets), caplets, capsules, and liquids(e.g., flavored syrups). Such dosage forms contain predetermined amountsof active ingredients, and may be prepared by methods of pharmacy wellknown to those skilled in the art. See generally, Remington'sPharmaceutical Sciences, 20th ed., Mack Publishing, Easton Pa. (2000).

In certain embodiments, the oral dosage forms are solid and preparedunder anhydrous conditions with anhydrous ingredients, as described indetail herein. However, the scope of the compositions provided hereinextends beyond anhydrous, solid oral dosage forms. As such, furtherforms are described herein.

Typical oral dosage forms are prepared by combining the activeingredient(s) in an intimate admixture with at least one excipientaccording to conventional pharmaceutical compounding techniques.Excipients can take a wide variety of forms depending on the form ofpreparation desired for administration. For example, excipients suitablefor use in oral liquid or aerosol dosage forms include, but are notlimited to, water, glycols, oils, alcohols, flavoring agents,preservatives, and coloring agents. Examples of excipients suitable foruse in solid oral dosage forms (e.g., powders, tablets, capsules, andcaplets) include, but are not limited to, starches, sugars, microcrystalline cellulose, diluents, granulating agents, lubricants,binders, and disintegrating agents.

Because of their ease of administration, tablets and capsules representthe most advantageous oral dosage unit forms, in which case solidexcipients are employed. If desired, tablets can be coated by standardaqueous or non-aqueous techniques. Such dosage forms can be prepared byany of the methods of pharmacy. In general, pharmaceutical compositionsand dosage forms are prepared by uniformly and intimately admixing theactive ingredients with liquid carriers, finely divided solid carriers,or both, and then shaping the product into the desired presentation ifnecessary.

For example, a tablet can be prepared by compression or molding.Compressed tablets can be prepared by compressing in a suitable machinethe active ingredients in a free flowing form such as powder orgranules, optionally mixed with an excipient. Molded tablets can be madeby molding in a suitable machine a mixture of the powdered compoundmoistened with an inert liquid diluent.

Examples of excipients that can be used in oral dosage forms include,but are not limited to, binders, fillers, disintegrants, and lubricants.Binders suitable for use in pharmaceutical compositions and dosage formsinclude, but are not limited to, corn starch, potato starch, or otherstarches, gelatin, natural and synthetic gums such as acacia, sodiumalginate, alginic acid, other alginates, powdered tragacanth, guar gum,cellulose and its derivatives (e.g., ethyl cellulose, cellulose acetate,carboxymethyl cellulose calcium, sodium carboxymethyl cellulose),polyvinyl pyrrolidone, methyl cellulose, pre gelatinized starch,hydroxypropyl methyl cellulose, (e.g., Nos. 2208, 2906, 2910),microcrystalline cellulose, and mixtures thereof.

Examples of fillers suitable for use in the pharmaceutical compositionsand dosage forms disclosed herein include, but are not limited to, talc,calcium carbonate (e.g., granules or powder), microcrystallinecellulose, powdered cellulose, dextrates, kaolin, mannitol, silicicacid, sorbitol, starch, pre gelatinized starch, and mixtures thereof.The binder or filler in pharmaceutical compositions is typically presentin from about 50 to about 99 weight percent of the pharmaceuticalcomposition or dosage form.

Suitable forms of microcrystalline cellulose include, but are notlimited to, the materials sold as AVICEL PH 101, AVICEL PH 103 AVICEL RC581, AVICEL PH 105 (available from FMC Corporation, American ViscoseDivision, Avicel Sales, Marcus Hook, Pa.), and mixtures thereof. Aspecific binder is a mixture of microcrystalline cellulose and sodiumcarboxymethyl cellulose sold as AVICEL RC 581. Suitable anhydrous or lowmoisture excipients or additives include AVICEL PH 103™ and Starch 1500LM.

Disintegrants are used in the compositions to provide tablets thatdisintegrate when exposed to an aqueous environment. Tablets thatcontain too much disintegrant may disintegrate in storage, while thosethat contain too little may not disintegrate at a desired rate or underthe desired conditions. Thus, a sufficient amount of disintegrant thatis neither too much nor too little to detrimentally alter the release ofthe active ingredients should be used to form solid oral dosage forms.The amount of disintegrant used varies based upon the type offormulation, and is readily discernible to those of ordinary skill inthe art. Typical pharmaceutical compositions comprise from about 0.5 toabout 15 weight percent of disintegrant, specifically from about 1 toabout 5 weight percent of disintegrant.

Disintegrants that can be used in pharmaceutical compositions and dosageforms include, but are not limited to, agar, alginic acid, calciumcarbonate, microcrystalline cellulose, croscarmellose sodium,crospovidone, polacrilin potassium, sodium starch glycolate, potato or,or tapioca starch, pre gelatinized starch, other starches, clays, otheralgins, other celluloses, gums, and mixtures thereof.

Lubricants that can be used in pharmaceutical compositions and dosageforms include, but are not limited to, calcium stearate, magnesiumstearate, mineral oil, light mineral oil, glycerin, sorbitol, mannitol,polyethylene glycol, other glycols, stearic acid, sodium lauryl sulfate,talc, hydrogenated vegetable oil (e.g., peanut oil, cottonseed oil,sunflower oil, sesame oil, olive oil, corn oil, and soybean oil), zincstearate, ethyl oleate, ethyl laureate, agar, and mixtures thereof.Additional lubricants include, for example, a syloid silica gel (AEROSIL200, manufactured by W.R. Grace Co. of Baltimore, Md.), a coagulatedaerosol of synthetic silica (marketed by Degussa Co. of Plano, Tex.),CAB O SIL (a pyrogenic silicon dioxide product sold by Cabot Co. ofBoston, Mass.), and mixtures thereof. If used at all, lubricants aretypically used in an amount of less than about 1 weight percent of thepharmaceutical compositions or dosage forms into which they areincorporated.

Delayed Release Dosage Forms

Active ingredients such as the compounds provided herein can beadministered by controlled release means or by delivery devices that arewell known to those of ordinary skill in the art. Examples include, butare not limited to, those described in U.S. Pat. Nos. 3,845,770;3,916,899; 3,536,809; 3,598,123; and 4,008,719; 5,674,533; 5,059,595;5,591,767; 5,120,548; 5,073,543; 5,639,476; 5,354,556; 5,639,480;5,733,566; 5,739,108; 5,891,474; 5,922,356; 5,972,891; 5,980,945;5,993,855; 6,045,830; 6,087,324; 6,113,943; 6,197,350; 6,248,363;6,264,970; 6,267,981; 6,376,461; 6,419,961; 6,589,548; 6,613,358; and6,699,500; each of which is incorporated herein by reference in itsentirety. Such dosage forms can be used to provide slow or controlledrelease of one or more active ingredients using, for example,hydropropylmethyl cellulose, other polymer matrices, gels, permeablemembranes, osmotic systems, multilayer coatings, microparticles,liposomes, microspheres, or a combination thereof to provide the desiredrelease profile in varying proportions. Suitable controlled releaseformulations known to those of ordinary skill in the art, includingthose described herein, can be readily selected for use with the activeingredients provided herein. Thus encompassed herein are single unitdosage forms suitable for oral administration such as, but not limitedto, tablets, capsules, gelcaps, and caplets that are adapted forcontrolled release.

All controlled release pharmaceutical products have a common goal ofimproving drug therapy over that achieved by their non-controlledcounterparts. Ideally, the use of an optimally designed controlledrelease preparation in medical treatment is characterized by a minimumof drug substance being employed to cure or control the condition in aminimum amount of time. Advantages of controlled release formulationsinclude extended activity of the drug, reduced dosage frequency, andincreased subject compliance. In addition, controlled releaseformulations can be used to affect the time of onset of action or othercharacteristics, such as blood levels of the drug, and can thus affectthe occurrence of side (e.g., adverse) effects.

Most controlled release formulations are designed to initially releasean amount of drug (active ingredient) that promptly produces the desiredtherapeutic effect, and gradually and continually release of otheramounts of drug to maintain this level of therapeutic or prophylacticeffect over an extended period of time. In order to maintain thisconstant level of drug in the body, the drug must be released from thedosage form at a rate that will replace the amount of drug beingmetabolized and excreted from the body. Controlled release of an activeingredient can be stimulated by various conditions including, but notlimited to, pH, temperature, enzymes, water, or other physiologicalconditions or compounds.

In certain embodiments, the drug may be administered using intravenousinfusion, an implantable osmotic pump, a transdermal patch, liposomes,or other modes of administration. In certain embodiments, a pump may beused (see, Sefton, CRC Crit. Ref Biomed. Eng. 14:201 (1987); Buchwald etal., Surgery 88:507 (1980); Saudek et al., N. Engl. J. Med. 321:574(1989)). In another embodiment, polymeric materials can be used. In yetanother embodiment, a controlled release system can be placed in asubject at an appropriate site determined by a practitioner of skill,i.e., thus requiring only a fraction of the systemic dose (see, e.g.,Goodson, Medical Applications of Controlled Release, vol. 2, pp. 115-138(1984)). Other controlled release systems are discussed in the review byLanger (Science 249:1527-1533 (1990)). The active ingredient can bedispersed in a solid inner matrix, e.g., polymethylmethacrylate,polybutylmethacrylate, plasticized or unplasticized polyvinylchloride,plasticized nylon, plasticized polyethyleneterephthalate, naturalrubber, polyisoprene, polyisobutylene, polybutadiene, polyethylene,ethylene-vinylacetate copolymers, silicone rubbers,polydimethylsiloxanes, silicone carbonate copolymers, hydrophilicpolymers such as hydrogels of esters of acrylic and methacrylic acid,collagen, cross-linked polyvinylalcohol and cross-linked partiallyhydrolyzed polyvinyl acetate, that is surrounded by an outer polymericmembrane, e.g., polyethylene, polypropylene, ethylene/propylenecopolymers, ethylene/ethyl acrylate copolymers, ethylene/vinylacetatecopolymers, silicone rubbers, polydimethyl siloxanes, neoprene rubber,chlorinated polyethylene, polyvinylchloride, vinylchloride copolymerswith vinyl acetate, vinylidene chloride, ethylene and propylene, ionomerpolyethylene terephthalate, butyl rubber epichlorohydrin rubbers,ethylene/vinyl alcohol copolymer, ethylene/vinyl acetate/vinyl alcoholterpolymer, and ethylene/vinyloxyethanol copolymer, that is insoluble inbody fluids. The active ingredient then diffuses through the outerpolymeric membrane in a release rate controlling step. The percentage ofactive ingredient in such parenteral compositions is highly dependent onthe specific nature thereof, as well as the needs of the subject.

Parenteral Dosage Forms

In certain embodiments, provided are parenteral dosage forms. Parenteraldosage forms can be administered to subjects by various routesincluding, but not limited to, subcutaneous, intravenous (includingbolus injection), intramuscular, and intraarterial. Because theiradministration typically bypasses subjects' natural defenses againstcontaminants, parenteral dosage forms are typically, sterile or capableof being sterilized prior to administration to a subject. Examples ofparenteral dosage forms include, but are not limited to, solutions readyfor injection, dry products ready to be dissolved or suspended in apharmaceutically acceptable vehicle for injection, suspensions ready forinjection, and emulsions.

Suitable vehicles that can be used to provide parenteral dosage formsare well known to those skilled in the art. Examples include, but arenot limited to: Water for Injection USP; aqueous vehicles such as, butnot limited to, Sodium Chloride Injection, Ringer's Injection, DextroseInjection, Dextrose and Sodium Chloride Injection, and Lactated Ringer'sInjection; water miscible vehicles such as, but not limited to, ethylalcohol, polyethylene glycol, and polypropylene glycol; and non-aqueousvehicles such as, but not limited to, corn oil, cottonseed oil, peanutoil, sesame oil, ethyl oleate, isopropyl myristate, and benzyl benzoate.

Compounds that increase the solubility of one or more of the activeingredients disclosed herein can also be incorporated into theparenteral dosage forms.

Transdermal, Topical & Mucosal Dosage Forms

Also provided are transdermal, topical, and mucosal dosage forms.Transdermal, topical, and mucosal dosage forms include, but are notlimited to, ophthalmic solutions, sprays, aerosols, creams, lotions,ointments, gels, solutions, emulsions, suspensions, or other forms knownto one of skill in the art. See, e.g., Remington's PharmaceuticalSciences, 16^(th), 18th and 20^(th) eds., Mack Publishing, Easton Pa.(1980, 1990 & 2000); and Introduction to Pharmaceutical Dosage Forms,4th ed., Lea & Febiger, Philadelphia (1985). Dosage forms suitable fortreating mucosal tissues within the oral cavity can be formulated asmouthwashes or as oral gels. Further, transdermal dosage forms include“reservoir type” or “matrix type” patches, which can be applied to theskin and worn for a specific period of time to permit the penetration ofa desired amount of active ingredients.

Suitable excipients (e.g., carriers and diluents) and other materialsthat can be used to provide transdermal, topical, and mucosal dosageforms encompassed herein are well known to those skilled in thepharmaceutical arts, and depend on the particular tissue to which agiven pharmaceutical composition or dosage form will be applied. Withthat fact in mind, typical excipients include, but are not limited to,water, acetone, ethanol, ethylene glycol, propylene glycol, butane 1,3diol, isopropyl myristate, isopropyl palmitate, mineral oil, andmixtures thereof to form lotions, tinctures, creams, emulsions, gels, orointments, which are nontoxic and pharmaceutically acceptable.Moisturizers or humectants can also be added to pharmaceuticalcompositions and dosage forms if desired. Examples of such additionalingredients are well known in the art. See, e.g., Remington'sPharmaceutical Sciences, 16^(th), 18th and 20^(th) eds., MackPublishing, Easton Pa. (1980, 1990 & 2000).

Depending on the specific tissue to be treated, additional componentsmay be used prior to, in conjunction with, or subsequent to treatmentwith active ingredients provided. For example, penetration enhancers canbe used to assist in delivering the active ingredients to the tissue.Suitable penetration enhancers include, but are not limited to: acetone;various alcohols such as ethanol, oleyl, and tetrahydrofuryl; alkylsulfoxides such as dimethyl sulfoxide; dimethyl acetamide; dimethylformamide; polyethylene glycol; pyrrolidones such aspolyvinylpyrrolidone; Kollidon grades (Povidone, Polyvidone); urea; andvarious water soluble or insoluble sugar esters such as Tween 80(polysorbate 80) and Span 60 (sorbitan monostearate).

The pH of a pharmaceutical composition or dosage form, or of the tissueto which the pharmaceutical composition or dosage form is applied, mayalso be adjusted to improve delivery of one or more active ingredients.Similarly, the polarity of a solvent carrier, its ionic strength, ortonicity can be adjusted to improve delivery. Compounds such asstearates can also be added to pharmaceutical compositions or dosageforms to advantageously alter the hydrophilicity or lipophilicity of oneor more active ingredients so as to improve delivery. In this regard,stearates can serve as a lipid vehicle for the formulation, as anemulsifying agent or surfactant, and as a delivery enhancing orpenetration enhancing agent. Different salts, hydrates or solvates ofthe active ingredients can be used to further adjust the properties ofthe resulting composition.

Dosage and Unit Dosage Forms

In human therapeutics, the doctor will determine the posology which heconsiders most appropriate according to a preventive or curativetreatment and according to the age, weight, stage of the infection andother factors specific to the subject to be treated. In certainembodiments, doses are from about 1 to about 1000 mg per day for anadult, or from about 5 to about 250 mg per day or from about 10 to 50 mgper day for an adult. In certain embodiments, doses are from about 5 toabout 400 mg per day or 25 to 200 mg per day per adult. In certainembodiments, dose rates of from about 50 to about 500 mg per day arealso contemplated.

In further aspects, provided are methods of treating or preventing anHCV infection in a subject by administering, to a subject in needthereof, an effective amount of a compound provided herein, or apharmaceutically acceptable salt thereof. The amount of the compound orcomposition which will be effective in the prevention or treatment of adisorder or one or more symptoms thereof will vary with the nature andseverity of the disease or condition, and the route by which the activeingredient is administered. The frequency and dosage will also varyaccording to factors specific for each subject depending on the specifictherapy (e.g., therapeutic or prophylactic agents) administered, theseverity of the disorder, disease, or condition, the route ofadministration, as well as age, body, weight, response, and the pastmedical history of the subject. Effective doses may be extrapolated fromdose-response curves derived from in vitro or animal model test systems.

In certain embodiments, exemplary doses of a composition includemilligram or microgram amounts of the active compound per kilogram ofsubject or sample weight (e.g., about 10 micrograms per kilogram toabout 50 milligrams per kilogram, about 100 micrograms per kilogram toabout 25 milligrams per kilogram, or about 100 microgram per kilogram toabout 10 milligrams per kilogram). For compositions provided herein, incertain embodiments, the dosage administered to a subject is 0.140 mg/kgto 3 mg/kg of the subject's body weight, based on weight of the activecompound. In certain embodiments, the dosage administered to a subjectis between 0.20 mg/kg and 2.00 mg/kg, or between 0.30 mg/kg and 1.50mg/kg of the subject's body weight.

In certain embodiments, the recommended daily dose range of acomposition provided herein for the conditions described herein liewithin the range of from about 0.1 mg to about 1000 mg per day, given asa single once-a-day dose or as divided doses throughout a day. Incertain embodiments, the daily dose is administered twice daily inequally divided doses. In certain embodiments, a daily dose range shouldbe from about 10 mg to about 200 mg per day, in other embodiments,between about 10 mg and about 150 mg per day, in further embodiments,between about 25 and about 100 mg per day. It may be necessary to usedosages of the active ingredient outside the ranges disclosed herein insome cases, as will be apparent to those of ordinary skill in the art.Furthermore, it is noted that the clinician or treating physician willknow how and when to interrupt, adjust, or terminate therapy inconjunction with subject response.

Different therapeutically effective amounts may be applicable fordifferent diseases and conditions, as will be readily known by those ofordinary skill in the art. Similarly, amounts sufficient to prevent,manage, treat or ameliorate such disorders, but insufficient to cause,or sufficient to reduce, adverse effects associated with the compositionprovided herein are also encompassed by the herein described dosageamounts and dose frequency schedules. Further, when a subject isadministered multiple dosages of a composition provided herein, not allof the dosages need be the same. For example, the dosage administered tothe subject may be increased to improve the prophylactic or therapeuticeffect of the composition or it may be decreased to reduce one or moreside effects that a particular subject is experiencing.

In certain embodiment, the dosage of the composition provided herein,based on weight of the active compound, administered to prevent, treat,manage, or ameliorate a disorder, or one or more symptoms thereof in asubject is 0.1 mg/kg, 1 mg/kg, 2 mg/kg, 3 mg/kg, 4 mg/kg, 5 mg/kg, 6mg/kg, 10 mg/kg, or 15 mg/kg or more of a subject's body weight. Inanother embodiment, the dosage of the composition or a compositionprovided herein administered to prevent, treat, manage, or ameliorate adisorder, or one or more symptoms thereof in a subject is a unit dose of0.1 mg to 200 mg, 0.1 mg to 100 mg, 0.1 mg to 50 mg, 0.1 mg to 25 mg,0.1 mg to 20 mg, 0.1 mg to 15 mg, 0.1 mg to 10 mg, 0.1 mg to 7.5 mg, 0.1mg to 5 mg, 0.1 to 2.5 mg, 0.25 mg to 20 mg, 0.25 to 15 mg, 0.25 to 12mg, 0.25 to 10 mg, 0.25 mg to 7.5 mg, 0.25 mg to 5 mg, 0.5 mg to 2.5 mg,1 mg to 20 mg, 1 mg to 15 mg, 1 mg to 12 mg, 1 mg to 10 mg, 1 mg to 7.5mg, 1 mg to 5 mg, or 1 mg to 2.5 mg.

In certain embodiments, treatment or prevention can be initiated withone or more loading doses of a compound or composition provided hereinfollowed by one or more maintenance doses. In such embodiments, theloading dose can be, for instance, about 60 to about 400 mg per day, orabout 100 to about 200 mg per day for one day to five weeks. The loadingdose can be followed by one or more maintenance doses. In certainembodiments, each maintenance does is, independently, about from about10 mg to about 200 mg per day, between about 25 mg and about 150 mg perday, or between about 25 and about 80 mg per day. Maintenance doses canbe administered daily and can be administered as single doses, or asdivided doses.

In certain embodiments, a dose of a compound or composition providedherein can be administered to achieve a steady-state concentration ofthe active ingredient in blood or serum of the subject. The steady-stateconcentration can be determined by measurement according to techniquesavailable to those of skill or can be based on the physicalcharacteristics of the subject such as height, weight and age. Incertain embodiments, a sufficient amount of a compound or compositionprovided herein is administered to achieve a steady-state concentrationin blood or serum of the subject of from about 300 to about 4000 ng/mL,from about 400 to about 1600 ng/mL, or from about 600 to about 1200ng/mL. In some embodiments, loading doses can be administered to achievesteady-state blood or serum concentrations of about 1200 to about 8000ng/mL, or about 2000 to about 4000 ng/mL for one to five days. Incertain embodiments, maintenance doses can be administered to achieve asteady-state concentration in blood or serum of the subject of fromabout 300 to about 4000 ng/mL, from about 400 to about 1600 ng/mL, orfrom about 600 to about 1200 ng/mL.

In certain embodiments, administration of the same composition may berepeated and the administrations may be separated by at least 1 day, 2days, 3 days, 5 days, 10 days, 15 days, 30 days, 45 days, 2 months, 75days, 3 months, or 6 months. In other embodiments, administration of thesame prophylactic or therapeutic agent may be repeated and theadministration may be separated by at least at least 1 day, 2 days, 3days, 5 days, 10 days, 15 days, 30 days, 45 days, 2 months, 75 days, 3months, or 6 months.

In certain aspects, provided herein are unit dosages comprising acompound, or a pharmaceutically acceptable salt thereof, in a formsuitable for administration. Such forms are described in detail herein.In certain embodiments, the unit dosage comprises 1 to 1000 mg, 5 to 250mg or 10 to 50 mg active ingredient. In particular embodiments, the unitdosages comprise about 1, 5, 10, 25, 50, 100, 125, 250, 500, or 1000 mgactive ingredient. Such unit dosages can be prepared according totechniques familiar to those of skill in the art.

The dosages of the second agents are to be used in the combinationtherapies provided herein. In certain embodiments, dosages lower thanthose which have been or are currently being used to prevent or treatHCV infection are used in the combination therapies provided herein. Therecommended dosages of second agents can be obtained from the knowledgeof those of skill. For those second agents that are approved forclinical use, recommended dosages are described in, for example, Hardmanet al., eds., 1996, Goodman & Gilman's The Pharmacological Basis OfBasis Of Therapeutics 9^(th) Ed, Mc-Graw-Hill, New York; Physician'sDesk Reference (PDR) 57^(th) Ed., 2003, Medical Economics Co., Inc.,Montvale, N.J., which are incorporated herein by reference in itsentirety.

In various embodiments, the therapies (e.g., a compound provided hereinand the second agent) are administered less than 5 minutes apart, lessthan 30 minutes apart, 1 hour apart, at about 1 hour apart, at about 1to about 2 hours apart, at about 2 hours to about 3 hours apart, atabout 3 hours to about 4 hours apart, at about 4 hours to about 5 hoursapart, at about 5 hours to about 6 hours apart, at about 6 hours toabout 7 hours apart, at about 7 hours to about 8 hours apart, at about 8hours to about 9 hours apart, at about 9 hours to about 10 hours apart,at about 10 hours to about 11 hours apart, at about 11 hours to about 12hours apart, at about 12 hours to 18 hours apart, 18 hours to 24 hoursapart, 24 hours to 36 hours apart, 36 hours to 48 hours apart, 48 hoursto 52 hours apart, 52 hours to 60 hours apart, 60 hours to 72 hoursapart, 72 hours to 84 hours apart, 84 hours to 96 hours apart, or 96hours to 120 hours apart. In various embodiments, the therapies areadministered no more than 24 hours apart or no more than 48 hours apart.In certain embodiments, two or more therapies are administered withinthe same patient visit. In other embodiments, the compound providedherein and the second agent are administered concurrently.

In other embodiments, the compound provided herein and the second agentare administered at about 2 to 4 days apart, at about 4 to 6 days apart,at about 1 week part, at about 1 to 2 weeks apart, or more than 2 weeksapart.

In certain embodiments, administration of the same agent may be repeatedand the administrations may be separated by at least 1 day, 2 days, 3days, 5 days, 10 days, 15 days, 30 days, 45 days, 2 months, 75 days, 3months, or 6 months. In other embodiments, administration of the sameagent may be repeated and the administration may be separated by atleast at least 1 day, 2 days, 3 days, 5 days, 10 days, 15 days, 30 days,45 days, 2 months, 75 days, 3 months, or 6 months.

In certain embodiments, a compound provided herein and a second agentare administered to a patient, for example, a mammal, such as a human,in a sequence and within a time interval such that the compound providedherein can act together with the other agent to provide an increasedbenefit than if they were administered otherwise. For example, thesecond active agent can be administered at the same time or sequentiallyin any order at different points in time; however, if not administeredat the same time, they should be administered sufficiently close in timeso as to provide the desired therapeutic or prophylactic effect. Incertain embodiments, the compound provided herein and the second activeagent exert their effect at times which overlap. Each second activeagent can be administered separately, in any appropriate form and by anysuitable route. In other embodiments, the compound provided herein isadministered before, concurrently or after administration of the secondactive agent.

In certain embodiments, the compound provided herein and the secondagent are cyclically administered to a patient. Cycling therapy involvesthe administration of a first agent (e.g., a first prophylactic ortherapeutic agents) for a period of time, followed by the administrationof a second agent and/or third agent (e.g., a second and/or thirdprophylactic or therapeutic agents) for a period of time and repeatingthis sequential administration. Cycling therapy can reduce thedevelopment of resistance to one or more of the therapies, avoid orreduce the side effects of one of the therapies, and/or improve theefficacy of the treatment.

In certain embodiments, the compound provided herein and the secondactive agent are administered in a cycle of less than about 3 weeks,about once every two weeks, about once every 10 days or about once everyweek. One cycle can comprise the administration of a compound providedherein and the second agent by infusion over about 90 minutes everycycle, about 1 hour every cycle, about 45 minutes every cycle. Eachcycle can comprise at least 1 week of rest, at least 2 weeks of rest, atleast 3 weeks of rest. The number of cycles administered is from about 1to about 12 cycles, more typically from about 2 to about 10 cycles, andmore typically from about 2 to about 8 cycles.

In other embodiments, courses of treatment are administered concurrentlyto a patient, i.e., individual doses of the second agent areadministered separately yet within a time interval such that thecompound provided herein can work together with the second active agent.For example, one component can be administered once per week incombination with the other components that can be administered onceevery two weeks or once every three weeks. In other words, the dosingregimens are carried out concurrently even if the therapeutics are notadministered simultaneously or during the same day.

The second agent can act additively or synergistically with the compoundprovided herein. In certain embodiments, the compound provided herein isadministered concurrently with one or more second agents in the samepharmaceutical composition. In another embodiment, a compound providedherein is administered concurrently with one or more second agents inseparate pharmaceutical compositions. In still another embodiment, acompound provided herein is administered prior to or subsequent toadministration of a second agent. Also contemplated are administrationof a compound provided herein and a second agent by the same ordifferent routes of administration, e.g., oral and parenteral. Incertain embodiments, when the compound provided herein is administeredconcurrently with a second agent that potentially produces adverse sideeffects including, but not limited to, toxicity, the second active agentcan advantageously be administered at a dose that falls below thethreshold that the adverse side effect is elicited.

Kits

Also provided are kits for use in methods of treatment of a liverdisorder such as HCV infections. The kits can include a compound orcomposition provided herein, a second agent or composition, andinstructions providing information to a health care provider regardingusage for treating the disorder. Instructions may be provided in printedform or in the form of an electronic medium such as a floppy disc, CD,or DVD, or in the form of a website address where such instructions maybe obtained. A unit dose of a compound or composition provided herein,or a second agent or composition, can include a dosage such that whenadministered to a subject, a therapeutically or prophylacticallyeffective plasma level of the compound or composition can be maintainedin the subject for at least 1 days. In some embodiments, a compound orcomposition can be included as a sterile aqueous pharmaceuticalcomposition or dry powder (e.g., lyophilized) composition.

In some embodiments, suitable packaging is provided. As used herein,“packaging” includes a solid matrix or material customarily used in asystem and capable of holding within fixed limits a compound providedherein and/or a second agent suitable for administration to a subject.Such materials include glass and plastic (e.g., polyethylene,polypropylene, and polycarbonate) bottles, vials, paper, plastic, andplastic-foil laminated envelopes and the like. If e-beam sterilizationtechniques are employed, the packaging should have sufficiently lowdensity to permit sterilization of the contents.

Methods of Use

Provided herein is a method for inhibiting replication of a virus in ahost, which comprises contacting the host with a therapeuticallyeffective amount of a 3′-deoxy nucleoside compound disclosed herein,e.g., a 3′-deoxy nucleoside compound of Formula 3001a-b, 2001a-b,Ia-XII, 1a-4-bii, 102, 202-205, or 1001-1004, including a singleenantiomer, a mixture of an enantiomeric pair, an individualdiastereomer, a mixture of diastereomers, or a tautomeric form thereof;or a pharmaceutically acceptable salt, solvate, prodrug, phosphate, oractive metabolite thereof.

Provided herein is a method for inhibiting replication of a virus in acell, which comprises contacting the cell with a therapeuticallyeffective amount of a 3′-deoxy nucleoside compound disclosed herein,e.g., a 3′-deoxy nucleoside compound of Formula 3001a-b, 2001a-b,Ia-XII, 1a-4-bii, 102, 202-205, or 1001-1004, including a singleenantiomer, a mixture of an enantiomeric pair, an individualdiastereomer, a mixture of diastereomers, or a tautomeric form thereof;or a pharmaceutically acceptable salt, solvate, prodrug, phosphate, oractive metabolite thereof.

Provided herein is a method for inhibiting replication of a virus, whichcomprises contacting the virus with a therapeutically effective amountof a 3′-deoxy nucleoside compound disclosed herein, e.g., a 3′-deoxynucleoside compound of Formula 3001a-b, 2001a-b, Ia-XII, 1a-4-bii, 102,202-205, or 1001-1004, including a single enantiomer, a mixture of anenantiomeric pair, an individual diastereomer, a mixture ofdiastereomers, or a tautomeric form thereof; or a pharmaceuticallyacceptable salt, solvate, prodrug, phosphate, or active metabolitethereof.

Provided herein is a method for inhibiting the activity of a polymerase,which comprises contacting the polymerase with a ester or malonate of a3′-deoxy nucleoside compound disclosed herein, e.g., a 3′-deoxynucleoside compound of Formula 3001a-b, 2001a-b, Ia-XII, 1a-4-bii, 102,202-205, or 1001-1004, including a single enantiomer, a mixture of anenantiomeric pair, an individual diastereomer, a mixture ofdiastereomers, or a tautomeric form thereof; or a pharmaceuticallyacceptable salt, solvate, prodrug, phosphate, or active metabolitethereof.

In certain embodiments, provided herein are methods for the treatmentand/or prophylaxis of a host infected with Flaviviridae that includesthe administration of an effective amount of a 3′-deoxy nucleosidecompound disclosed herein, e.g., a 3′-deoxy nucleoside compound ofFormula 3001a-b, 2001a-b, Ia-XII, 1a-4-bii, 102, 202-205, or 1001-1004,including a single enantiomer, a mixture of an enantiomeric pair, anindividual diastereomer, a mixture of diastereomers, or a tautomericform thereof; or a pharmaceutically acceptable salt, solvate, prodrug,phosphate, or active metabolite thereof.

In certain embodiments, the methods encompass the step of administeringto the subject in need thereof an amount of a compound effective for thetreatment or prevention of an HCV infection in combination with a secondagent effective for the treatment or prevention of the infection. Thecompound can be any compound as described herein, and the second agentcan be any second agent described in the art or herein. In certainembodiments, the compound is in the form of a pharmaceutical compositionor dosage form, as described elsewhere herein.

In certain embodiments, provided herein are methods for the treatmentand/or prophylaxis of a host infected with Flaviviridae that includesthe administration of an effective amount of a compound provided herein,or a pharmaceutically acceptable salt thereof. In certain embodiments,provided herein are methods for treating an HCV infection in a subject.In certain embodiments, the methods encompass the step of administeringto a subject in need thereof an amount of a compound effective for thetreatment or prevention of an HCV infection in combination with a secondagent effective for the treatment or prevention of the infection. Thecompound can be any compound as described herein, and the second agentcan be any second agent described in the art or herein. In certainembodiments, the compound is in the form of a pharmaceutical compositionor dosage form, as described elsewhere herein.

Flaviviridae which can be treated are, e.g., discussed generally inFields Virology, Fifth Ed., Editors: Knipe, D. M., and Howley, P. M.,Lippincott Williams & Wilkins Publishers, Philadelphia, Pa., Chapters33-35, 2006. In a particular embodiment of the invention, theFlaviviridae is HCV. In an alternate embodiment, the Flaviviridae is aflavivirus or pestivirus. In certain embodiments, the Flaviviridae canbe from any class of Flaviviridae. In certain embodiments, theFlaviviridae is a mammalian tick-borne virus. In certain embodiments,the Flaviviridae is a seabird tick-borne virus. In certain embodiments,the Flaviviridae is a mosquito-borne virus. In certain embodiments, theFlaviviridae is an Aroa virus. In certain embodiments, the Flaviviridaeis a Dengue virus. In certain embodiments, the Flaviviridae is aJapanese encephalitis virus. In certain embodiments, the Flaviviridae isa Kokobera virus. In certain embodiments, the Flaviviridae is a Ntayavirus. In certain embodiments, the Flaviviridae is a Spondweni virus. Incertain embodiments, the Flaviviridae is a Yellow fever virus. Incertain embodiments, the Flaviviridae is a Entebbe virus. In certainembodiments, the Flaviviridae is a Modoc virus. In certain embodiments,the Flaviviridae is a Rio Bravo virus.

Specific flaviviruses which can be treated include, without limitation:Absettarov, Aedes, Alfuy, Alkhurma, Apoi, Aroa, Bagaza, Banzi, Bukalasabat, Bouboui, Bussuquara, Cacipacore, Calbertado, Carey Island, Cellfusing agent, Cowbone Ridge, Culex, Dakar bat, Dengue 1, Dengue 2,Dengue 3, Dengue 4, Edge Hill, Entebbe bat, Gadgets Gully, Hanzalova,Hypr, Ilheus, Israel turkey meningoencephalitis, Japanese encephalitis,Jugra, Jutiapa, Kadam, Kamiti River, Karshi, Kedougou, Kokobera,Koutango, Kumlinge, Kunjin, Kyasanur Forest disease, Langat, Loupingill, Meaban, Modoc, Montana myotis leukoencephalitis, Murray valleyencephalitis, Nakiwogo, Naranjal, Negishi, Ntaya, Omsk hemorrhagicfever, Phnom-Penh bat, Powassan, Quang Binh, Rio Bravo, Rocio, RoyalFarm, Russian spring-summer encephalitis, Saboya, St. Louisencephalitis, Sal Vieja, San Perlita, Saumarez Reef, Sepik, Sokuluk,Spondweni, Stratford, Tembusu, Tick-borne encephalitis, Turkish sheepencephalitis, Tyuleniy, Uganda S, Usutu, Wesselsbron, West Nile,Yaounde, Yellow fever, Yokose, and Zika.

Pestiviruses which can be treated are discussed generally in FieldsVirology, Fifth Ed., Editors: Knipe, D. M., and Howley, P. M.,Lippincott Williams & Wilkins Publishers, Philadelphia, Pa., Chapters33-35, 2006. Specific pestiviruses which can be treated include, withoutlimitation: bovine viral diarrhea virus (“BVDV”), classical swine fevervirus (“CSFV,” also called hog cholera virus), and border disease virus(“BDV”).

In certain embodiments, the subject can be any subject infected with, orat risk for infection with, HCV. Infection or risk for infection can bedetermined according to any technique deemed suitable by thepractitioner of skill in the art. In certain embodiments, subjects arehumans infected with HCV.

In certain embodiments, the subject has never received therapy orprophylaxis for an HCV infection. In further embodiments, the subjecthas previously received therapy or prophylaxis for an HCV infection. Forinstance, in certain embodiments, the subject has not responded to anHCV therapy. For example, under current interferon therapy, up to 50% ormore HCV subjects do not respond to therapy. In certain embodiments, thesubject can be a subject that received therapy but continued to sufferfrom viral infection or one or more symptoms thereof. In certainembodiments, the subject can be a subject that received therapy butfailed to achieve a sustained virologic response. In certainembodiments, the subject has received therapy for an HCV infection buthas failed to show, for example, a 2 log₁₀ decline in HCV RNA levelsafter 12 weeks of therapy. It is believed that subjects who have notshown more than 2 log₁₀ reduction in serum HCV RNA after 12 weeks oftherapy have a 97-100% chance of not responding.

In certain embodiments, the subject is a subject that discontinued anHCV therapy because of one or more adverse events associated with thetherapy. In certain embodiments, the subject is a subject where currenttherapy is not indicated. For instance, certain therapies for HCV areassociated with neuropsychiatric events. Interferon (IFN)-alfa plusribavirin is associated with a high rate of depression. Depressivesymptoms have been linked to a worse outcome in a number of medicaldisorders. Life-threatening or fatal neuropsychiatric events, includingsuicide, suicidal and homicidal ideation, depression, relapse of drugaddiction/overdose, and aggressive behavior have occurred in subjectswith and without a previous psychiatric disorder during HCV therapy.Interferon-induced depression is a limitation for the treatment ofchronic hepatitis C₁ especially for subjects with psychiatric disorders.Psychiatric side effects are common with interferon therapy andresponsible for about 10% to 20% of discontinuations of current therapyfor HCV infection.

Accordingly, provided are methods of treating or preventing an HCVinfection in subjects where the risk of neuropsychiatric events, such asdepression, contraindicates treatment with current HCV therapy. Incertain embodiments, provided are methods of treating or preventing HCVinfection in subjects where a neuropsychiatric event, such asdepression, or risk of such indicates discontinuation of treatment withcurrent HCV therapy. Further provided are methods of treating orpreventing HCV infection in subjects where a neuropsychiatric event,such as depression, or risk of such indicates dose reduction of currentHCV therapy.

Current therapy is also contraindicated in subjects that arehypersensitive to interferon or ribavirin, or both, or any othercomponent of a pharmaceutical product for administration of interferonor ribavirin. Current therapy is not indicated in subjects withhemoglobinopathies (e.g., thalassemia major, sickle-cell anemia) andother subjects at risk from the hematologic side effects of currenttherapy. Common hematologic side effects include bone marrowsuppression, neutropenia, and thrombocytopenia. Furthermore, ribavirinis toxic to red blood cells and is associated with hemolysis.Accordingly, in certain embodiments, provided are methods of treating orpreventing HCV infection in subjects hypersensitive to interferon orribavirin, or both, subjects with a hemoglobinopathy, for instancethalassemia major subjects and sickle-cell anemia subjects, and othersubjects at risk from the hematologic side effects of current therapy.

In certain embodiments, the subject has received an HCV therapy anddiscontinued that therapy prior to administration of a method providedherein. In further embodiments, the subject has received therapy andcontinues to receive that therapy along with administration of a methodprovided herein. The methods can be co-administered with other therapyfor HBC and/or HCV according to the judgment of one of skill in the art.In certain embodiments, the methods or compositions provided herein canbe co-administered with a reduced dose of the other therapy for HBCand/or HCV.

In certain embodiments, provided are methods of treating a subject thatis refractory to treatment with interferon. For instance, in someembodiments, the subject can be a subject that has failed to respond totreatment with one or more agents selected from the group consisting ofinterferon, interferon α, pegylated interferon α, interferon plusribavirin, interferon α plus ribavirin and pegylated interferon α plusribavirin. In some embodiments, the subject can be a subject that hasresponded poorly to treatment with one or more agents selected from thegroup consisting of interferon, interferon α, pegylated interferon α,interferon plus ribavirin, interferon α plus ribavirin and pegylatedinterferon α plus ribavirin. A pro-drug form of ribavirin, such astaribavirin, may also be used.

In certain embodiments, the subject has, or is at risk for, co-infectionof HCV with HIV. For instance, in the United States, 30% of HIV subjectsare co-infected with HCV and evidence indicates that people infectedwith HIV have a much more rapid course of their hepatitis C infection.Maier and Wu, 2002, World J Gastroenterol 8:577-57. The methods providedherein can be used to treat or prevent HCV infection in such subjects.It is believed that elimination of HCV in these subjects will lowermortality due to end-stage liver disease. Indeed, the risk ofprogressive liver disease is higher in subjects with severeAIDS-defining immunodeficiency than in those without. See, e.g., Lesenset al., 1999, J Infect Dis 179:1254-1258. In certain embodiments,compounds provided herein have been shown to suppress HIV in HIVsubjects. Thus, in certain embodiments, provided are methods of treatingor preventing HIV infection and HCV infection in subjects in needthereof.

In certain embodiments, the compounds or compositions are administeredto a subject following liver transplant. Hepatitis C is a leading causeof liver transplantation in the U.S., and many subjects that undergoliver transplantation remain HCV positive following transplantation. Incertain embodiments, provided are methods of treating such recurrent HCVsubjects with a compound or composition provided herein. In certainembodiments, provided are methods of treating a subject before, duringor following liver transplant to prevent recurrent HCV infection.

Second Therapeutic Agents

In certain embodiments, the compounds and compositions provided hereinare useful in methods of treatment of a liver disorder, that comprisefurther administration of a second agent effective for the treatment ofthe disorder, such as HCV infection in a subject in need thereof. Thesecond agent can be any agent known to those of skill in the art to beeffective for the treatment of the disorder, including those currentlyapproved by the FDA.

In certain embodiments, a compound provided herein is administered incombination with one second agent. In further embodiments, a secondagent is administered in combination with two second agents. In stillfurther embodiments, a second agent is administered in combination withtwo or more second agents.

As used herein, the term “in combination” includes the use of more thanone therapy (e.g., one or more prophylactic and/or therapeutic agents).The use of the term “in combination” does not restrict the order inwhich therapies (e.g., prophylactic and/or therapeutic agents) areadministered to a subject with a disorder. A first therapy (e.g., aprophylactic or therapeutic agent such as a compound provided herein)can be administered prior to (e.g., 5 minutes, 15 minutes, 30 minutes,45 minutes, 1 hour, 2 hours, 4 hours, 6 hours, 12 hours, 24 hours, 48hours, 72 hours, 96 hours, 1 week, 2 weeks, 3 weeks, 4 weeks, 5 weeks, 6weeks, 8 weeks, or 12 weeks before), concomitantly with, or subsequentto (e.g., 5 minutes, 15 minutes, 30 minutes, 45 minutes, 1 hour, 2hours, 4 hours, 6 hours, 12 hours, 24 hours, 48 hours, 72 hours, 96hours, 1 week, 2 weeks, 3 weeks, 4 weeks, 5 weeks, 6 weeks, 8 weeks, or12 weeks after) the administration of a second therapy (e.g., aprophylactic or therapeutic agent) to a subject with a disorder.

As used herein, the term “synergistic” includes a combination of acompound provided herein and another therapy (e.g., a prophylactic ortherapeutic agent) which has been or is currently being used to prevent,manage or treat a disorder, which is more effective than the additiveeffects of the therapies. A synergistic effect of a combination oftherapies (e.g., a combination of prophylactic or therapeutic agents)permits the use of lower dosages of one or more of the therapies and/orless frequent administration of said therapies to a subject with adisorder. The ability to utilize lower dosages of a therapy (e.g., aprophylactic or therapeutic agent) and/or to administer said therapyless frequently reduces the toxicity associated with the administrationof said therapy to a subject without reducing the efficacy of saidtherapy in the prevention or treatment of a disorder). In addition, asynergistic effect can result in improved efficacy of agents in theprevention or treatment of a disorder. Finally, a synergistic effect ofa combination of therapies (e.g., a combination of prophylactic ortherapeutic agents) may avoid or reduce adverse or unwanted side effectsassociated with the use of either therapy alone.

The active compounds provided herein can be administered in combinationor alternation with another therapeutic agent, in particular an anti-HCVagent. In combination therapy, effective dosages of two or more agentsare administered together, whereas in alternation or sequential-steptherapy, an effective dosage of each agent is administered serially orsequentially. The dosages given will depend on absorption, inactivationand excretion rates of the drug as well as other factors known to thoseof skill in the art. It is to be noted that dosage values will also varywith the severity of the condition to be alleviated. It is to be furtherunderstood that for any particular subject, specific dosage regimens andschedules should be adjusted over time according to the individual needand the professional judgment of the person administering or supervisingthe administration of the compositions. In certain embodiments, ananti-HCV (or anti-pestivirus or anti-flavivirus) compound that exhibitsan EC₅₀ of 10-15 μM. In certain embodiments, less than 1-5 μM, isdesirable.

It has been recognized that drug-resistant variants of flaviviruses,pestiviruses or HCV can emerge after prolonged treatment with anantiviral agent. Drug resistance most typically occurs by mutation of agene that encodes for an enzyme used in viral replication. The efficacyof a drug against the viral infection can be prolonged, augmented, orrestored by administering the compound in combination or alternationwith a second, and perhaps third, antiviral compound that induces adifferent mutation from that caused by the principle drug.Alternatively, the pharmacokinetics, biodistribution or other parameterof the drug can be altered by such combination or alternation therapy.In general, combination therapy is typically preferred over alternationtherapy because it induces multiple simultaneous stresses on the virus.

Any known viral treatments can be used in combination or alternationwith the compounds described herein. Non-limiting examples of secondagents include:

HCV Protease inhibitors: Examples include Medivir HCV Protease Inhibitor(HCV-PI, TMC435, simeprevir) (Medivir/Tibotec); MK-7009 (Merck), RG7227(ITMN-191) (Roche/Pharmasset/InterMune), boceprevir (SCH 503034)(Schering), SCH 446211 (Schering), narlaprevir SCH900518(Schering/Merck), ABT-450 (Abbott/Enanta), ACH-1625 (Achillion), BI201335 (Boehringer Ingelheim), PHX1766 (Phenomix), VX-500 (Vertex), andtelaprevir (VX-950) (Vertex). Further examples of protease inhibitorsinclude substrate-based NS3 protease inhibitors (Attwood et al.,Antiviral peptide derivatives, PCT WO 98/22496, 1998; Attwood et al.,Antiviral Chemistry and Chemotherapy 1999, 10, 259-273; Attwood et al.,Preparation and use of amino acid derivatives as anti-viral agents,German Patent Pub. DE 19914474; Tung et al., Inhibitors of serineproteases, particularly hepatitis C virus NS3 protease, PCT WO98/17679), including alphaketoamides and hydrazinoureas, and inhibitorsthat terminate in an electrophile such as a boronic acid or phosphonate(Llinas-Brunet et al, Hepatitis C inhibitor peptide analogues, PCT WO99/07734); Non-substrate-based NS3 protease inhibitors such as2,4,6-trihydroxy-3-nitro-benzamide derivatives (Sudo K. et al.,Biochemical and Biophysical Research Communications, 1997, 238, 643-647;Sudo K. et al., Antiviral Chemistry and Chemotherapy, 1998, 9, 186),including RD3-4082 and RD3-4078, the former substituted on the amidewith a 14 carbon chain and the latter processing a para-phenoxyphenylgroup; and Sch 68631, a phenanthrenequinone, an HCV protease inhibitor(Chu M. et al., Tetrahedron Letters 37:7229-7232, 1996).

SCH 351633, isolated from the fungus Penicillium griseofulvum, wasidentified as a protease inhibitor (Chu M. et al., Bioorganic andMedicinal Chemistry Letters 9:1949-1952). Eglin c, isolated from leech,is a potent inhibitor of several serine proteases such as S. griseusproteases A and B, α-chymotrypsin, chymase and subtilisin. Qasim M. A.et al., Biochemistry 36:1598-1607, 1997.

U.S. patents disclosing protease inhibitors for the treatment of HCVinclude, for example, U.S. Pat. No. 6,004,933 to Spruce et al., whichdiscloses a class of cysteine protease inhibitors for inhibiting HCVendopeptidase 2; U.S. Pat. No. 5,990,276 to Zhang et al., whichdiscloses synthetic inhibitors of hepatitis C virus NS3 protease; U.S.Pat. No. 5,538,865 to Reyes et a; WO 02/008251 to Corvas International,Inc., and U.S. Pat. No. 7,169,760, US2005/176648, WO 02/08187 and WO02/008256 to Schering Corporation. HCV inhibitor tripeptides aredisclosed in U.S. Pat. Nos. 6,534,523, 6,410,531, and 6,420,380 toBoehringer Ingelheim and WO 02/060926 to Bristol Myers Squibb. Diarylpeptides as NS3 serine protease inhibitors of HCV are disclosed in WO02/48172 and U.S. Pat. No. 6,911,428 to Schering Corporation.Imidazoleidinones as NS3 serine protease inhibitors of HCV are disclosedin WO 02/08198 and U.S. Pat. No. 6,838,475 to Schering Corporation andWO 02/48157 and U.S. Pat. No. 6,727,366 to Bristol Myers Squibb. WO98/17679 and U.S. Pat. No. 6,265,380 to Vertex Pharmaceuticals and WO02/48116 and U.S. Pat. No. 6,653,295 to Bristol Myers Squibb alsodisclose HCV protease inhibitors. Further examples of HCV serineprotease inhibitors are provided in U.S. Pat. No. 6,872,805(Bristol-Myers Squibb); WO 2006000085 (Boehringer Ingelheim); U.S. Pat.No. 7,208,600 (Vertex); US 2006/0046956 (Schering-Plough); WO2007/001406 (Chiron); US 2005/0153877; WO 2006/119061 (Merck); WO00/09543 (Boehringer Ingelheim), U.S. Pat. No. 6,323,180 (BoehringerIngelheim) WO 03/064456 (Boehringer Ingelheim), U.S. Pat. No. 6,642,204(Boehringer Ingelheim), WO 03/064416 (Boehringer Ingelheim), U.S. Pat.No. 7,091,184 (Boehringer Ingelheim), WO 03/053349 (Bristol-MyersSquibb), U.S. Pat. No. 6,867,185, WO 03/099316 (Bristol-Myers Squibb),U.S. Pat. No. 6,869,964, WO 03/099274 (Bristol-Myers Squibb), U.S. Pat.No. 6,995,174, WO 2004/032827 (Bristol-Myers Squibb), U.S. Pat. No.7,041,698, WO 2004/043339 and U.S. Pat. No. 6,878,722 (Bristol-MyersSquibb).

Thiazolidine derivatives which show relevant inhibition in areverse-phase HPLC assay with an NS3/4A fusion protein and NS5A/5Bsubstrate (Sudo K. et al., Antiviral Research, 1996, 32, 9-18),especially compound RD-1-6250, possessing a fused cinnamoyl moietysubstituted with a long alkyl chain, RD4 6205 and RD4 6193;

Thiazolidines and benzanilides identified in Kakiuchi N. et al., J. EBSLetters 421, 217-220; Takeshita N. et al., Analytical Biochemistry,1997, 247, 242-246;

A phenanthrenequinone possessing activity against protease in a SDS-PAGEand autoradiography assay isolated from the fermentation culture brothof Streptomyces sp., SCH 68631 (Chu M. et al., Tetrahedron Letters,1996, 37, 7229-7232), and SCH 351633, isolated from the fungusPenicillium griseofulvum, which demonstrates activity in a scintillationproximity assay (Chu M. et al., Bioorganic and Medicinal ChemistryLetters 9, 1949-1952);

Helicase inhibitors (Diana G. D. et al., Compounds, compositions andmethods for treatment of hepatitis C, U.S. Pat. No. 5,633,358; Diana G.D. et al., Piperidine derivatives, pharmaceutical compositions thereofand their use in the treatment of hepatitis C, PCT WO 97/36554);

HCV polymerase inhibitors, including nucleoside and non-nucleosidepolymerase inhibitors, such as ribavirin, viramidine, clemizole,filibuvir (PF-00868554), HCV POL, NM 283 (valopicitabine), MK-0608,7-Fluoro-MK-0608, MK-3281, IDX-375, ABT-072, ABT-333, ANA598, BI 207127,GS 9190, PSI-6130, R1626, PSI-6206, PSI-938, PSI-7851, PSI-7977(GS-7977, sofosbuvir, Sovaldi), RG1479, RG7128, HCV-796, VCH-759, orVCH-916.

Gliotoxin (Ferrari R. et al., Journal of Virology, 1999, 73, 1649-1654),and the natural product cerulenin (Lohmann V. et al., Virology, 1998,249, 108-118);

Interfering RNA (iRNA) based antivirals, including short interfering RNA(siRNA) based antivirals, such as Sirna-034 and others described inInternational Patent Publication Nos. WO/03/070750 and WO 2005/012525,and US Patent Publication No. US 2004/0209831;

Antisense phosphorothioate oligodeoxynucleotides (S-ODN) complementaryto sequence stretches in the 5′ non-coding region (NCR) of the virus(Alt M. et al., Hepatology, 1995, 22, 707-717), or nucleotides 326-348comprising the 3′ end of the NCR and nucleotides 371-388 located in thecore coding region of the HCV RNA (Alt M. et al., Archives of Virology,1997, 142, 589-599; Galderisi U. et al., Journal of Cellular Physiology,1999, 181, 251-257);

Inhibitors of IRES-dependent translation (Ikeda N et al., Agent for theprevention and treatment of hepatitis C, Japanese Patent Pub.JP-08268890; Kai Y. et al., Prevention and treatment of viral diseases,Japanese Patent Pub. JP-10101591);

HCV NS5A inhibitors, such as BMS-790052 (daclatasvir, Bristol-MyersSquibb), PPI-461 (Presidio Pharmaceuticals), PPI-1301 (PresidioPharmaceuticals), IDX-719 (Idenix Pharmaceuticals), AZD7295 (ArrowTherapeutics, AstraZeneca), EDP-239 (Enanta), ACH-2928 (Achillion),ACH-3102 (Achillion), ABT-267 (Abbott), or GS-5885 (Gilead);

HCV entry inhibitors, such as celgosivir (MK-3253) (MIGENIX Inc.), SP-30(Samaritan Pharmaceuticals), ITX4520 (iTherX), ITX5061 (iTherX), PRO-206(Progenics Pharmaceuticals) and other entry inhibitors by ProgenicsPharmaceuticals, e.g., as disclosed in U.S. Patent Publication No.2006/0198855;

Ribozymes, such as nuclease-resistant ribozymes (Maccjak, D. J. et al.,Hepatology 1999, 30, abstract 995) and those disclosed in U.S. Pat. No.6,043,077 to Barber et al., and U.S. Pat. Nos. 5,869,253 and 5,610,054to Draper et al.; and

Nucleoside analogs have also been developed for the treatment ofFlaviviridae infections.

In certain embodiments, the compounds provided herein can beadministered in combination with any of the compounds described byIdenix Pharmaceuticals in International Publication Nos. WO 01/90121, WO01/92282, WO 2004/003000, WO 2004/002422, and WO 2004/002999.

Other patent applications disclosing the use of certain nucleosideanalogs that can be used as second agents to treat hepatitis C virusinclude: PCT/CA00/01316 (WO 01/32153; filed Nov. 3, 2000) andPCT/CA01/00197 (WO 01/60315; filed Feb. 19, 2001) filed by BioChemPharma, Inc. (now Shire Biochem, Inc.); PCT/US02/01531 (WO 02/057425;filed Jan. 18, 2002); PCT/US02/03086 (WO 02/057287; filed Jan. 18,2002); U.S. Pat. Nos. 7,202,224; 7,125,855; 7,105,499; and 6,777,395 byMerck & Co., Inc.; PCT/EP01/09633 (WO 02/18404; published Aug. 21,2001); US 2006/0040890; 2005/0038240; 2004/0121980; U.S. Pat. Nos.6,846,810; 6,784,166; and 6,660,721 by Roche; PCT Publication Nos. WO01/79246 (filed Apr. 13, 2001), WO 02/32920 (filed Oct. 18, 2001) and WO02/48165; U.S. Pat. Nos. 7,094,770 and 6,927,291 by Pharmasset, Ltd.

Further compounds that can be used as second agents to treat hepatitis Cvirus are disclosed in PCT Publication No. WO 99/43691 to EmoryUniversity, entitled “2′-Fluoronucleosides”. The use of certain2′-fluoronucleosides to treat HCV is disclosed.

Other compounds that can be used as second agents include1-amino-alkylcyclohexanes (U.S. Pat. No. 6,034,134 to Gold et al.),alkyl lipids (U.S. Pat. No. 5,922,757 to Chojkier et al.), vitamin E andother antioxidants (U.S. Pat. No. 5,922,757 to Chojkier et al.),squalene, amantadine, bile acids (U.S. Pat. No. 5,846,964 to Ozeki etal.), N-(phosphonoacetyl)-L-aspartic acid, (U.S. Pat. No. 5,830,905 toDiana et al.), benzenedicarboxamides (U.S. Pat. No. 5,633,388 to Dianaet al.), polyadenylic acid derivatives (U.S. Pat. No. 5,496,546 to Wanget al.), 2′,3′-dideoxyinosine (U.S. Pat. No. 5,026,687 to Yarchoan etal.), benzimidazoles (U.S. Pat. No. 5,891,874 to Colacino et al.), plantextracts (U.S. Pat. No. 5,837,257 to Tsai et al., U.S. Pat. No.5,725,859 to Omer et al., and U.S. Pat. No. 6,056,961), and piperidines(U.S. Pat. No. 5,830,905 to Diana et al.).

In certain embodiments, a compound of Formula 3001a-b, 2001a-b, Ia-XII,1a-4-bii, 102, 202-205, or 1001-1004, or a composition comprising acompound of Formula 3001a-b, 2001a-b, Ia-XII, 1a-4-bii, 102, 202-205, or1001-1004, is administered in combination or alternation with a secondanti-viral agent selected from the group consisting of an interferon, anucleotide analogue, a polymerase inhibitor, an NS3 protease inhibitor,an NS5A inhibitor, an entry inhibitor, a non-nucleoside polymeraseinhibitor, a cyclosporine immune inhibitor, an NS4A antagonist, anNS4B-RNA binding inhibitor, a locked nucleic acid mRNA inhibitor, acyclophilin inhibitor, or a combination thereof.

Exemplary Second Therapeutic Agents for Treatment of HCV

In certain embodiments, one or more compounds provided herein can beadministered in combination or alternation with an anti-hepatitis Cvirus interferon, such as Intron A® (interferon alfa-2b) and; Roferon A®(Recombinant interferon alfa-2a), Infergen® (consensus interferon;interferon alfacon-1), PEG-Intron® (pegylated interferon alfa-2b), andPegasys® (pegylated interferon alfa-2a). In certain embodiments, one ormore compounds provided herein can be administered in combination oralternation with ribavirin and in combination or alternation with ananti-hepatitis C virus interferon. In certain embodiments, one or morecompounds provided herein can be administered in combination oralternation with ribavirin, in combination or alternation with ananti-hepatitis C virus interferon, and in combination or alternationwith an anti-hepatitis C virus protease inhibitor. In certainembodiments, one or more compounds provided herein can be administeredin combination or alternation with ribavirin. In certain embodiments,one or more compounds provided herein can be administered in combinationor alternation with an anti-hepatitis C virus interferon and withoutribavirin. In certain embodiments, one or more compounds provided hereincan be administered in combination or alternation with an anti-hepatitisC virus interferon, in combination or alternation with an anti-hepatitisC virus protease inhibitor, and without ribavirin.

In certain embodiments, the anti-hepatitis C virus interferon isinfergen, IL-29 (PEG-Interferon lambda), R7025 (Maxy-alpha), Belerofon,Oral Interferon alpha, BLX-883 (Locteron), omega interferon, multiferon,medusa interferon, Albuferon, or REBIF®.

In certain embodiments, one or more compounds provided herein can beadministered in combination or alternation with an anti-hepatitis Cvirus polymerase inhibitor, such as ribavirin, viramidine, HCV POL, NM283 (valopicitabine), MK-0608, 7-Fluoro-MK-0608, PSI-6130, R1626,PSI-6206, PSI-938, R1479, HCV-796, VX-950 (Telaprevir, Vertex), GS 9190NN (Gilead), GS 9256 (Gilead), PSI-7792 (BMS), BI 207127 (BI), R7128(Roche), PSI-7977 (GS-7977, sofosbuvir, Sovaldi) (Gilead-Pharmasset),PSI-938 (Pharmasset), VX-222 (Vertex), ALS-2200 (Vertex), ALS-2158(Vertex), MK-0608 (Merck), TMC649128 (Medivir), PF-868554 (Pfizer),PF-4878691 (Pfizer), ANA598 (Roche), VCH-759 (Vertex), IDX184 (Idenix),IDX375 (Idenix), A-837093 (Abbott), GS 9190 (Gilead), GSK625433(GlaxoSmithKline), ABT-072 (Abbott), ABT-333 (Abbott), INX-189(Inhibitex), or EDP-239 (Enanta).

In certain embodiments, the one or more compounds provided herein can beadministered in combination with ribavarin and an anti-hepatitis C virusinterferon, such as Intron A® (interferon alfa-2b) and Pegasys®(Peginterferon alfa-2a); Roferon A® (Recombinant interferon alfa-2a),Infergen® (consensus interferon; interferon alfacon-1), PEG-Intron®(pegylated interferon alfa-2b), Zalbin (albinterferon alfa-2b), omegainterferon, pegylated interferon lambda, and Pegasys® (pegylatedinterferon alfa-2a).

In certain embodiments, one or more compounds provided herein can beadministered in combination or alternation with an anti-hepatitis Cvirus protease inhibitor such as ITMN-191, SCH 503034 (boceprevir),VX950 (telaprevir), VX985, VX500, VX813, PHX1766, BMS-650032, GS 9256,BI 201335, IDX320, R7227, MK-7009 (vaniprevir), TMC435, BMS-791325,ACH-1625, ACH-2684, ABT-450, AVL-181, or Medivir HCV Protease Inhibitor.

In certain embodiments, one or more compounds provided herein can beadministered in combination or alternation with an HCV NS5A inhibitor,such as BMS-790052 (daclatasvir, Bristol-Myers Squibb), PPI-461(Presidio Pharmaceuticals), PPI-1301 (Presidio Pharmaceuticals), IDX-719(Idenix Pharmaceuticals), AZD7295 (Arrow Therapeutics, AstraZeneca),EDP-239 (Enanta), ACH-2928 (Achillion), ACH-3102 (Achillion), ABT-267(Abbott), or GS-5885 (Gilead).

In certain embodiments, one or more compounds provided herein can beadministered in combination or alternation with an anti-hepatitis Cvirus vaccine, such as TG4040, PeviPROTM, CGI-5005, HCV/MF59, GV1001,IC₄₁, GNI-103, GenPhar HCV vaccine, C-Vaxin, CSL123, Hepavaxx C,ChronVac-C®, or INN00101 (E1).

In certain embodiments, one or more compounds provided herein can beadministered in combination or alternation with an anti-hepatitis Cvirus monoclonal antibody, such as MBL-HCV1, AB68 or XTL-6865 (formerlyHepX-C); or an anti-hepatitis C virus polyclonal antibody, such ascicavir.

In certain embodiments, one or more compounds provided herein can beadministered in combination or alternation with an anti-hepatitis Cvirus immunomodulator, such as Zadaxin® (thymalfasin), SCV-07, NOV-205,or Oglufanide.

In certain embodiments, one or more compounds provided herein can beadministered in combination or alternation with cyclophilin inhibitor,such as Enanta cyclophilin binder, SCY-635, or Debio-025.

In certain embodiments, one or more compounds provided herein can beadministered in combination or alternation with Nexavar, doxorubicin,PI-88, amantadine, JBK-122, VGX-410C, MX-3253 (Ceglosivir), Suvus(BIVN-401 or virostat), PF-03491390 (formerly IDN-6556), G126270,UT-231B, DEBIO-025, EMZ702, ACH-0137171, MitoQ, ANA975, AVI-4065,Bavituxinab (Tarvacin), Alinia (nitrazoxanide), or PYN17.

In certain embodiments, one or more compounds provided herein can beadministered in combination or alternation with telaprevir, boceprevir,interferon alfacon-1, interferon alfa-2b, pegylated interferon alpha 2a,pegylated interferon alpha 2b, ribavirin, or combinations thereof.

In certain embodiments, one or more compounds provided herein can beadministered in combination or alternation with a protease inhibitor. Incertain embodiments, one or more compounds provided herein can beadministered in combination or alternation with telaprevir. In certainembodiments, one or more compounds provided herein can be administeredin combination or alternation with boceprevir.

In certain embodiments, one or more compounds provided herein can beadministered in combination or alternation with a protease inhibitor andin combination or alternation with ribavirin. In certain embodiments,one or more compounds provided herein can be administered in combinationor alternation with telaprevir and in combination or alternation withribavirin. In certain embodiments, one or more compounds provided hereincan be administered in combination or alternation with boceprevir and incombination or alternation with ribavirin.

In certain embodiments, one or more compounds provided herein can beadministered in combination or alternation with a protease inhibitor andnot in combination or alternation with ribavirin. In certainembodiments, one or more compounds provided herein can be administeredin combination or alternation with telaprevir and not in combination oralternation with ribavirin. In certain embodiments, one or morecompounds provided herein can be administered in combination oralternation with boceprevir and not in combination or alternation withribavirin.

In certain embodiments, one or more compounds provided herein can beadministered in combination or alternation with an interferon. Incertain embodiments, one or more compounds provided herein can beadministered in combination or alternation with interferon alfacon-1. Incertain embodiments, one or more compounds provided herein can beadministered in combination or alternation with interferon alfa-2b. Incertain embodiments, one or more compounds provided herein can beadministered in combination or alternation with pegylated interferonalpha 2a. In certain embodiments, one or more compounds provided hereincan be administered in combination or alternation with pegylatedinterferon alpha 2b.

In certain embodiments, one or more compounds provided herein can beadministered in combination or alternation with an interferon and incombination or alternation with ribavirin. In certain embodiments, oneor more compounds provided herein can be administered in combination oralternation with interferon alfacon-land in combination or alternationwith ribavirin. In certain embodiments, one or more compounds providedherein can be administered in combination or alternation with interferonalfa-2b and in combination or alternation with ribavirin. In certainembodiments, one or more compounds provided herein can be administeredin combination or alternation with pegylated interferon alpha 2a and incombination or alternation with ribavirin. In certain embodiments, oneor more compounds provided herein can be administered in combination oralternation with pegylated interferon alpha 2b and in combination oralternation with ribavirin.

In certain embodiments, one or more compounds can be administered incombination or alternation with one or more of the second agentsprovided herein and not in combination or alternation with ribavirin. Incertain embodiments, one or more compounds provided herein can beadministered in combination or alternation with an interferon and not incombination or alternation with ribavirin. In certain embodiments, oneor more compounds provided herein can be administered in combination oralternation with interferon alfacon-land not in combination oralternation with ribavirin. In certain embodiments, one or morecompounds provided herein can be administered in combination oralternation with interferon alfa-2b and not in combination oralternation with ribavirin. In certain embodiments, one or morecompounds provided herein can be administered in combination oralternation with pegylated interferon alpha 2a and not in combination oralternation with ribavirin. In certain embodiments, one or morecompounds provided herein can be administered in combination oralternation with pegylated interferon alpha 2b and not in combination oralternation with ribavirin.

Assay Methods

Compounds can be assayed for HCV activity according to any assay knownto those of skill in the art.

Further, compounds can be assayed for accumulation in liver cells of asubject according to any assay known to those of skill in the art. Incertain embodiments, a compound can be administered to the subject, anda liver cell of the subject can be assayed for the compound or aderivative thereof, e.g. a nucleoside, nucleoside phosphate ornucleoside triphosphate derivative thereof.

In certain embodiments, a 3′-deoxy nucleoside compound is administeredto cells, such as liver cells, in vivo or in vitro, and the nucleosidetriphosphate levels delivered intracellularly are measured, to indicatedelivery of the compound and triphosphorylation in the cell. The levelsof intracellular nucleoside triphosphate can be measured usinganalytical techniques known in the art. Methods of detecting ddATP aredescribed herein below by way of example, but other nucleosidetriphosphates can be readily detected using the appropriate controls,calibration samples, and assay techniques.

In certain embodiments, ddATP concentrations are measured in a sample bycomparison to calibration standards made from control samples. The ddATPconcentrations in a sample can be measured using an analytical methodsuch as HPLC LC MS. In certain embodiments, a test sample is compared toa calibration curve created with known concentrations of ddATP tothereby obtain the concentration of that sample.

In certain embodiments, the samples are manipulated to remove impuritiessuch as salts (Na⁺, K⁺, etc.) before analysis. In certain embodiments,the lower limit of quantitation is about ˜0.2 pmol/mL for hepatocytecellular extracts particularly where reduced salt is present.

In certain embodiments, the method allows successfully measuringtriphosphate nucleotides formed at levels of 1-10,000 pmol per millioncells in, e.g., cultured hepatocytes and HepG2 cells.

EXAMPLES

As used herein, the symbols and conventions used in these processes,schemes, and examples, regardless of whether a particular abbreviationis specifically defined, are consistent with those used in thecontemporary scientific literature, for example, the Journal of theAmerican Chemical Society or the Journal of Biological Chemistry.Specifically, but without limitation, the following abbreviations may beused in the examples and throughout the specification: g (grams); mg(milligrams); mL (milliliters); μL (microliters); mM (millimolar); μM(micromolar); Hz (Hertz); MHz (megahertz); mmol (millimoles); hr or hrs(hours); min (minutes); MS (mass spectrometry); ESI (electrosprayionization); TLC (thin layer chromatography); HPLC (high pressure liquidchromatography); THF (tetrahydrofuran); CDCl₃ (deuterated chloroform);AcOH (acetic acid); DCM (dichloromethane); DMSO (dimethylsulfoxide);DMSO-d₆ (deuterated dimethylsulfoxide); EtOAc (ethyl acetate); MeOH(methanol); and BOC (t-butyloxycarbonyl).

For all of the following examples, standard work-up and purificationmethods known to those skilled in the art can be utilized. Unlessotherwise indicated, all temperatures are expressed in ° C. (degreesCentigrade). All reactions are conducted at room temperature unlessotherwise noted. Synthetic methodologies illustrated herein are intendedto exemplify the applicable chemistry through the use of specificexamples and are not indicative of the scope of the disclosure.

Example 1 Preparation of 3′-deoxy nucleosides Compounds 1b, 2b, 3b, and4b

In Scheme 1, Base is as provided in Table 1:

TABLE 1 Base Compound

Compound 1b Diastereomers 1 and 2

Compound 2b Diastereomers 1 and 2

Compound A3 mixture of Diastereomers

Compound 3b Diastereomers 1 and 2

Compound 4b Diastereomers 1 and 2

General Method A.

The following procedure was used to obtain compounds 1b, 2b, A3, and 4b.

Under nitrogen, to a stirred solution of L-Alanine isopropyl esterhydrochloride (0.697 mmol) in CH₃CN (3.3 mL) at −40° C. were addeddropwise phenyldichlorophosphate (0.697 mmol) and N-methylimidazole(NMI) (2.685 mmol). The reaction mixture was stirred at −30° C.<T<−5° C.during 2 hours and cooled down again to −30° C. The appropriatenucleoside (0.530 mmol) in CH₃CN was added dropwise under nitrogen andthe reaction mixture was allowed to warm up to room temperatureovernight. The reaction was quenched with methanol. The solvent wasremoved under reduced pressure and the crude was purified bychromatography on silica gel (eluent: CH₂Cl₂/CH₃OH 0 to 10%) and by RP18gel chromatography (for 1b, 2b, A3) or by MS preparative HPLC (for 4b)to give the pure diastereoisomers (mixture in case of A3).

Compound 1b Diastereomers 1 and 2

Compound 1b, Diastereoisomer 1: white solid; ¹H NMR (MeOD, 400 MHz) δ(ppm) 1.21 (d, J=6.27 Hz, 3H), 1.22 (d, J=6.27 Hz, 3H), 1.23 (d, J=21.33Hz, 3H), 1.31 (d, J=7.05 Hz, 3H), 2.28-2.54 (m, 2H), 3.87-3.94 (m, 1H),4.38-4.45 (m, 1H), 4.53-4.58 (m, 1H), 4.59-4.67 (m, 1H), 4.91-4.99 (m,1H), 6.10 (d, J=17.77 Hz, 1H), 7.16-7.19 (m, 1H), 7.22-7.30 (m, 4H),7.32-7.36 (m, 2H), 7.88 (s, 1H); ³¹P NMR (MeOD, 161.98 MHz) δ (ppm) 4.18(s, 1P); MS (ESI) m/z=553.35 (MH⁺).

Compound 1b, Diastereoisomer 2: white powder; ¹H NMR (MeOD, 400 MHz) δ(ppm) 1.18 (d, J=6.17 Hz, 3H), 1.19 (d, J=6.17 Hz, 3H), 1.26 (d, J=21.82Hz, 3H), 1.32 (d, J=7.11 Hz, 3H), 2.26-2.35 (m, 1H), 2.51-2.68 (m, 1H),3.88-3.95 (m, 1H), 4.36-4.42 (m, 1H), 4.46-4.51 (m, 1H), 4.55-4.61 (m,1H), 4.87-4.95 (m, 1H), 6.09 (d, J=17.87 Hz, 1H), 7.17-7.21 (m, 1H),7.25-7.27 (m, 2H), 7.34-7.38 (m, 2H), 7.88 (s, 1H); ³¹P NMR (MeOD,161.98 MHz) δ (ppm) 4.03 (s, 1P); MS (ESI) m/z=553.2 (MH⁺).

Compound 2b Diastereoisomers 1 and 2

Compound 2b, Diastereoisomer 1: white solid; 7% yield; ¹H NMR (MeOD, 400MHz) δ (ppm) 1.20 (d, J=6.21 Hz, 3H), 1.21 (d, J=21.73 Hz, 3H), 1.21 (d,J=6.21 Hz, 3H), 1.30 (d, J=7.13 Hz, 3H), 1.45 (t, J=7.11 Hz, 3H),2.30-2.39 (m, 1H), 2.43-2.59 (m, 1H), 3.86-3.94 (m, 1H), 4.41-4.47 (m,1H), 4.55 (q, J=7.11 Hz, 2H), 4.54-4.59 (m, 1H), 4.62-4.68 (m, 1H), 4.95(heptuplet, J=6.25 Hz, 1H), 6.17 (d, J=17.66 Hz, 1H), 7.15-7.19 (m, 1H),7.23-7.26 (m, 2H), 7.31-7.36 (m, 2H), 7.98 (s, 1H); ¹⁹F NMR (MeOD, δ76.5MHz) δ (ppm) −141.3 (s, 1F); ³¹P NMR (MeOD, 161.98 MHz) δ (ppm) 4.16 (s,1P); MS (ESI) m/z=581.35 (MH⁺).

Compound 2b, Diastereoisomer 2: beige solid; 10% yield; ¹H NMR (MeOD,400 MHz) δ (ppm) 1.17-1.19 (m, 6H), 1.24 (d, J=21.77 Hz, 3H), 1.30 (d,J=7.07 Hz, 3H), 1.44 (t, J=7.03 Hz, 3H), 2.28-2.37 (m, 1H), 2.59-2.76(m, 1H), 3.87-3.95 (m, 1H), 4.39-4.45 (m, 1H), 4.48-4.63 (m, 4H),4.86-4.94 (m, 1H), 6.14 (d, J=17.71 Hz, 1H), 7.17-7.21 (m, 1H),7.23-7.26 (m, 2H), 7.32-7.37 (m, 2H), 7.98 (s, 1H); ¹⁹F NMR (MeOD, δ76.5MHz) δ (ppm) −140.80 (s, 1F); ³¹P NMR (MeOD, 161.98 MHz) δ (ppm) 3.99(s, 1P); MS (ESI) m/z=581.35 (MH⁺).

Compound 4b

Compound 4b, Diastereoisomer 1: white powder; 2% yield; ¹H NMR (MeOD,400 MHz) δ (ppm) 1.22-1.25 (m, 6H), 1.32 (dd, J=7.22 Hz and 1.09 Hz,3H), 1.38 (d, J=21.78 Hz, 3H), 1.99-2.15 (m, 1H), 2.23-2.32 (m, 1H),3.87-3.95 (m, 1H), 4.35-4.41 (m, 1H), 4.53-4.58 (m, 2H), 4.99(heptuplet, J=6.31 Hz, 1H), 5.72 (d, J=8.21 Hz, 1H), 6.16 (d, J=18.85Hz, 1H), 7.19-7.26 (m, 3H), 7.36-7.40 (m, 2H), 7.74 (d, J=8.21 Hz, 1H);¹⁹F NMR (MeOD, δ76.5 MHz) δ (ppm) −140.0 (s, 1F); ³¹P NMR (MeOD, 161.98MHz) δ (ppm) 3.99 (s, 1P); MS (ESI) m/z=514.2 (MH⁺).

Compound 4b, Diastereoisomer 2: white powder; 2% yield; ¹H NMR (MeOD,400 MHz) δ (ppm) 1.23 (dd, J=6.31 Hz and 1.20 Hz, 6H), 1.35 (dd, J=7.18Hz and 0.60 Hz, 3H), 1.40 (d, J=21.82 Hz, 3H), 2.04-2.20 (m, 1H),2.24-2.33 (m, 1H), 3.88-3.96 (m, 1H), 4.31-4.36 (m, 1H), 4.47-4.55 (m,2H), 4.97 (heptuplet, J=6.26 Hz, 1H), 5.62 (d, J=8.18 Hz, 1H), 6.15 (d,J=18.93 Hz, 1H), 7.20-7.23 (m, 1H), 7.26-7.28 (m, 2H), 7.37-7.41 (m,2H), 7.71 (d, J=8.18 Hz, 1H); ¹⁹F NMR (MeOD, δ76.5 MHz) δ (ppm) −139.8(s, 1F); ³¹P NMR (MeOD, 161.98 MHz) δ (ppm) 3.77 (s, 1P); MS (ESI)m/z=514.2 (MH⁺).

Compound A3

Compound A3: 33% yield; mixture of diastereoisomers; MS (ESI) m/z=755.4(MH⁺)

Compound 3b Diastereomers 1 and 2

To a stirred solution of A3 (0.272 mmol) in DCM (5 mL/mmol) was added asolution of TFA (0.45 mL, 25% in DCM) at room temperature. The reactionmixture was stirred at room temperature for 5 hours, then at 40° C.overnight. Addition of a solution of TFA (0.22 mL, 25% in DCM) andstirring at 40° C. for 2 hours more were required for reactioncompletion. The mixture was concentrated under reduced pressure and thecrude was purified by chromatography on silica gel (eluent: CH₂Cl₂/CH₃OH0 to 8%) and by MS preparative HPLC to give two pure diastereoisomers.

Compound 3b, Diastereoisomer 1: white solid; ¹H NMR (MeOD, 400 MHz) δ(ppm) 1.23-1.25 (m, 6H), 1.29-1.35 (m, 6H), 1.95-2.11 (m, 1H), 2.20-2.29(m, 1H), 3.88-3.95 (m, 1H), 4.36-4.41 (m, 1H), 4.52-4.59 (m, 2H), 4.99(heptuplet, J=6.31 Hz, 1H), 5.90 (d, J=7.46 Hz, 1H), 6.27 (d, J=18.71Hz, 1H), 7.19-7.29 (m, 3H), 7.39-7.40 (m, 2H), 7.75 (d, J=7.46 Hz, 1H);¹⁹F NMR (MeOD, δ76.5 MHz) δ (ppm) −140.4 (s, 1F); ³¹P NMR (MeOD, 161.98MHz) δ (ppm) 3.98 (s, 1P); MS (ESI) m/z=513.2 (MH⁺).

Compound 3b, Diastereoisomer 2: white solid; ¹H NMR (MeOD, 400 MHz) δ(ppm) 1.21-1.23 (m, 6H), 1.32-1.37 (m, 6H), 1.98-2.15 (m, 1H), 2.20-2.29(m, 1H), 3.88-3.96 (m, 1H), 4.30-4.36 (m, 1H), 4.48-4.52 (m, 2H), 4.97(heptuplet, J=6.16 Hz, 1H), 5.85 (d, J=7.53 Hz, 1H), 6.26 (d, J=18.84Hz, 1H), 7.20-7.24 (m, 1H), 7.26-7.28 (m, 2H), 7.37-7.41 (m, 2H), 7.73(d, J=7.53 Hz, 1H); ¹⁹F NMR (MeOD, δ76.5 MHz) δ (ppm) −140.3 (s, 1F);³¹P NMR (MeOD, 161.98 MHz) δ (ppm) 3.74 (s, 1P); MS (ESI) m/z=513.2(MH⁺).

Compound 2a

Intermediate B2

To a stirred solution of 4-nitrophenyl dichlorophosphate (Aldrich)(35.97 mmol) in DCM (2 mL/mmol) was added a solution of phenol (Aldrich)(35.97 mmol) and TEA (39.57 mmol) in DCM (2 mL/mmol) at −78° C. over aperiod of 20 minutes. The reaction mixture was stirred at −78° C. during30 minutes and then, transferred into another round-bottom flaskcontaining D-alanine isopropyl ester hydrochloride (35.97 mmol) in DCM(2 mL/mmol) at 0° C. To the mixture was added TEA (31.31 mmol) over aperiod of 15 minutes. The reaction mixture was stirred at 0° C. during 1hour and then, the solvent was evaporated. The residue was trituratedwith ethyl acetate (45 mL) and the white solid was filtered-off. Thefiltrate was concentrated under reduced pressure and the residue waspurified by chromatography on silica gel (eluent: petroleumether-petroleum ether/ethyl acetate 20%) to give the expected compoundin 80% yield; ¹H NMR (CDCl₃, 400 MHz) δ (ppm) 1.22 (d, J=6.28 Hz, 3H),1.23 (d, J=6.28 Hz, 3H), 1.40 (m, 3H), 3.91-3.96 (m, 1H), 4.05-4.13 (m,1H), 5.01 (heptuplet, J=6.30 Hz, 1H), 7.19-7.25 (m, 3H), 7.33-7.41 (m,4H), 8.22 (dd, J=1.74 and 8.95 Hz, 2H); ³¹P NMR (CDCl₃, 161.98 MHz): δ(ppm) −3.21 (s, 0.45P), −3.18 (s, 0.55P); MS (ESI) m/z=409.14 (MH⁺).

Compound 2a

To a solution of 3′-deoxy nucleoside (0.803 mmol) in anhydrous THF (4mL) at room temperature under nitrogen was added dropwisetert-butylmagnesium chloride (1M in THF) (1.69 mmol) followed by DMSO(0.6 mL). The heterogeneous reaction mixture was stirred during 30minutes at room temperature. Compound B2 (0.964 mmol) in THF (2.4 mL)was added dropwise and the reaction mixture was capped at roomtemperature over a weekend. The reaction mixture was quenched withsaturated aqueous solution of NH₄Cl and diluted with ethyl acetate. Themixture was extracted with ethyl acetate and the organic layer waswashed with H₂O and NaHCO₃. The organic layer was dried over MgSO₄,filtered and concentrated under reduced pressure. The residue waspurified by chromatography on silica gel (eluent: CH₂Cl₂-CH₂Cl₂/CH₃OH)and by preparative HPLC to give two pure diastereoisomers.

Compound 2a, Diastereoisomer 1: white solid; 14% yield; ¹H NMR (DMSO-d₆,400 MHz) δ (ppm) 1.09 (d, J=6.24 Hz, 3H), 1.12 (d, J=6.24 Hz, 3H), 1.13(d, J=21.79 Hz, 3H), 1.19 (d, J=7.11 Hz, 3H), 1.35 (t, J=7.11 Hz, 3H),2.28-2.37 (m, 1H), 3.70-3.80 (m, 1H), 4.23-4.29 (m, 1H), 4.35-4.40 (m,1H), 4.45 (q, J=7.11 Hz, 2H), 4.47-4.51 (m, 1H), 4.83 (heptuplet, J=6.24Hz, 1H), 6.04-6.09 (m, 1H), 6.06 (d, J=18.25 Hz, 1H), 6.56 (s, 2H),7.14-7.17 (m, 1H), 7.20-7.22 (m, 2H), 7.32-7.36 (m, 2H), 7.94 (s, 1H);³¹P NMR (DMSO-d₆, 161.98 MHz) δ (ppm) 3.6 (s, 1P); MS (ESI) m/z=581.12(MH⁺).

Compound 2a, Diastereoisomer 2: white solid; 6% yield; ¹H NMR (DMSO-d₆,400 MHz) δ (ppm) 1.10 (d, J=6.21 Hz, 3H), 1.11 (d, J=6.21 Hz, 3H), 1.13(d, J=6.95 Hz, 3H), 1.16 (d, J=21.98 Hz, 3H), 1.35 (t, J=7.10 Hz, 3H),2.28-2.37 (m, 1H), 3.70-3.80 (m, 1H), 4.26-4.32 (m, 1H), 4.38-4.43 (m,1H), 4.44 (q, J=7.12 Hz, 2H), 4.47-4.54 (m, 1H), 4.81 (heptuplet, J=6.23Hz, 1H), 5.98 (dd, J=9.96 Hz and 12.72 Hz, 1H), 6.09 (d, J=18.27 Hz,1H), 6.55 (s, 2H), 7.14-7.18 (m, 3H), 7.33-7.37 (m, 2H), 7.99 (s, 1H);³¹P NMR (DMSO-d₆, 161.98 MHz) δ (ppm) 3.97 (s, 1P); MS (ESI) m/z=581.08(MH⁺).

Compounds 101 and 102

General Method B.

The following procedure was used to obtain compounds 101 and 102.

The appropriate nucleoside (100 mg) was dried in a flask under vacuumovernight. Trimethylphosphate (1.9 ml) and Proton Sponge (100 mg) wereadded to the flask and the reaction mixture was stirred under nitrogencooled by an ice/water bath. Distilled phosphorus oxychloride (45 μl)was added and the reaction mixture was stirred during 4 hours withcooling. Tributylamine (0.32 ml) and tributylamine pyrophosphate (4.0 mlof a 0.5 M solution in DMF) were added and the reaction was allowed tostir for an additional 45 min with cooling. The reaction was quenchedwith triethylammonium bicarbonate (0.5 M, 20 ml) and the solvents wereconcentrated under reduced pressure. The crude was dissolved in 10 ml ofwater and purified using a Sephadex DEAE A-25 column with a lineargradient of 0-1 M NaCl buffered with 20 mM Tris-HCl (pH 7.0)(triphosphates eluted at ˜0.4 M NaCl) and desalted on a C18 column togive the expected compound.

Compound 101

Colorless solid; MS (ESI) m/z=522 (MH⁺).

Compound 102

White solid; MS (ESI) m/z=483 (MH⁺).

Compounds 201 and 202

In Scheme 4, Base is as provided in Table 2:

TABLE 2 Base Structure B_(1a)

B_(1b)

B₂ 

B_(3a)

B_(3b)

Compound 201

Step 1

C1 (29.58 g, 0.090 mol) was dissolved in anhydrous pyridine (296 mL) andwas stirred under an argon atmosphere at room temperature. TritylChloride (46.27 g, 0.162 mol) was added and the solution heated to 60°C. for 1 h. At this time, the reaction was shown to be complete by TLC(silica gel, 9:1 DCM/MeOH) and LCMS analysis. The mixture was cooled toroom temperature and allowed to stir overnight. The mixture waspartitioned between dichloromethane (DCM, 250 mL) and aqueous HCl (2.5M,250 mL). After the layers were separated, the organic phase was washedwith aqueous HCl (2.5M, 3×250 mL), was dried with sodium sulfate, andwas concentrated under reduced pressure providing crude C2 as ayellow-colored foam. This crude product was purified by flashcolumn-chromatography (DCM) to give 37 g of the desired product C2(50.4%) as a white colored solid.

HPLC (Method A) 9.09 min; LCMS (M⁺+1, m/e=812.4); ¹H NMR (400 MHz,CD₃CN) δ 7.83 (s, 1H), 7.22-7.55 (m, 30H), 6.61 (br s, 1H), 5.80 (br s,1H), 4.43 (m, 1H), 4.10 (m, 3H), 3.57 (m, 1H), 3.54 (dd, 1H), 3.37 (dd,1H), 1.21 (m, 3H), 0.97 (br d, 3H).

Step 2

The nucleoside (C2, 10.02 g, 12.3 mmol) was dissolved in DCM (25 mL)under an argon atmosphere. 1,1′-Thiocarbonyldiimidazole (4.39 g, 24.7mmol, 2 eq) was added and the mixture heated at reflux for 90 minutes.TLC (silica gel, 3:2 EtOAC/Heptane) and HPLC Method B) analysesconfirmed that the reaction was complete. The reaction mixture wascooled to room temperature and was partitioned between DCM (25 mL) andaqueous HCl (1M, 30 mL). The organic phase was washed with successivelywith aqueous NaHCO₃ (30 mL) and brine (30 mL). The organic phase wasthen dried over sodium sulfate and was concentrated under reducedpressure at 45° C. to provide the crude product as an orange-coloredfoam. This material was purified by flash column-chromatography (silicagel 0→40% EtOAc/Heptane) affording 10.18 grams of C3 (90%) as awhite-colored solid.

HPLC (Method B), 11.21 min; LCMS (M⁺+1, m/e=922.4); ¹H NMR (400 MHz,CD₃CN) δ 8.34 (s, 1H), 7.80 (s, 1H), 7.68 (s, 1H), 7.05-7.40 (m, 32H),6.44 (br s, 1H), 6.07 (br d, 1H), 4.57 (m, 1H), 3.79 (m, 3H), 3.44 (dd,1H), 1.29 (m, 3H), 1.05 (m, 3H); ¹⁹F NMR (376 MHz, CD₃CN), −155.59.

Step 3

The nucleoside C3 (10.1 g, 10.9 mmol) was dissolved in toluene (70 mL).The clear solution was stirred and was degassed by bubbling argon gasthrough it. Argon was gently bubbled through the reaction mixturethroughout the reaction to keep it free from oxygen.Azoisobutyyronitrile (AIBN, 455 mg, 2.7 mmol, 0.25 eq) was addedfollowed by the addition of tributyl tin hydride (Bu₃SnH, 920 mg, 5.5mmol, 0.5 eq) via syringe. The mixture was heated to 100° C. for onehour. An additional charge of AIBN (493 mg, 2.7 mmol, 0.25 eq) was addedas a slurry in toluene (6 mL) followed by the immediate addition ofBu₃SnH (2.7 mL, 16.4 mmol, 1.5 eq). The mixture was stirred at 100° C.for an additional hour and was then allowed to cool to room temperature.The reaction mixture was diluted with ethyl acetate (100 mL) and waswashed successively with aqueous HCl (1N, 100 mL), aqueous sodiumbicarbonate solution (saturated, 100 mL), and brine (100 mL). Theorganic phase was dried over sodium sulfate and was concentrated underreduced pressure to afford the crude product as a light-brown coloredoil. The crude product was purified by column chromatography (silicagel, 0→50% EtOAc/heptanes) to provide C4 (7.38 g, 85%) as a whitecolored powder.

HPLC (Method B), 13.1 min; LCMS (M⁺1, m/e=796.4); ¹H NMR (400 MHz,CD₃CN) δ 7.82 (s, 1H), 7.20-7.48 (m, 30H), 6.59 (br s, 1H), 5.74 (br s,1H), 4.48 (m, 1H), 4.17 (br s, 2H), 3.51 (m, 1H), 3.33 (dd, 1H), 2.40(m, 1H), 2.25 (m, 1H), 1.23 (m, 3H), 1.01 (m, 3H); ¹⁹F NMR (376 MHz,CD₃CN), −124.34.

Step 4

The nucleoside C4 (3.74 g, 4.7 mmol) was dissolved in DCM (12 mL) atroom temperature. Ethanol (200 proof, 20 mL) was added followed byconcentrated HCl (12.1 N, 7.5 mL, 90 mmol, 19.4 eq). The mixture wasallowed to stir at room temperature for ca 3 hours. After stirring for20 minutes, the solution became opaque. An additional 10 mL of EtOH wasadded to regain the solution.) Once the reaction was complete, themixture was poured into aqueous sodium bicarbonate solution (saturated,95 mL). This biphasic solution was concentrated under reduced pressureat 45° C. to remove ethanol. The resulting milky, white-colored liquidwas mixed with DCM (90 mL) and water (60 mL). The layers were separatedand the aqueous phase was extracted with DCM (2×75 mL). The combinedorganic phases were dried over sodium sulfate and were concentratedunder reduced pressure to provide the crude product (2.9 g) which waspurified by column chromatography (silica gel, 0→20% MeOH/DCM) giving1.11 g of 203 (77%) as a white-colored solid.

HPLC (Method A), 3.24 min; LCMS (M⁺1, m/e=312); ¹H NMR (400 MHz,DMSO-d₆) δ 8.23 (s, 1H), 6.53 (br s, 2H), 6.05 (d, 1H), 5.23 (t, 1H),4.45 (q, 2H), 4.35 (m, 1H), 3.83 (m, 1H), 3.65 (m, 1H), 2.37 (m, 1H),2.25 (m, 1H), 1.36 (t, 3H), 1.15 (d, 3H); ¹⁹F NMR (376 MHz, DMSO-d₆),−140.76.

Step 5

Sodium iodide (3.03 g, 20 mmol, 6 eq) was dissolved in acetonitrile (17mL) at room temperature under an argon atmosphere. The mixture wascooled to 0° C. and trimethylsilyl chloride (TMS-Cl, 2.18 g, 20 mmol, 6eq) was added to afford a cloudy yellow-colored mixture. In a separateflask, the nucleoside (203, 1.04 g, 3.3 mmol) was dissolved in anhydrousacetonitrile (ACN, 33.0 mL) under an argon atmosphere and the resultingsolution cooled in an ice-bath to ca 0° C. The solution of 203 was addedto the NaI/TMS-Cl mixture via syringe. The mixture was allowed to slowlywarm to room temperature and was stirred overnight. LCMS analysisindicated the reaction to be complete. The reaction mixture was quenchedby the addition of TEA (2.03 g, 20 mmol). The resulting dark-browncolored material was concentrated under reduced pressure affording abrown-colored powder. The crude product was treated with Amberlite®weakly acidic ion exchange resin in a mixture of methanol and water(30:1). The resin was removed by gravity filtration and the resultingclear brown-colored filtrate was concentrated under reduced pressure toprovide a brown-colored powdery solid. This material was dried in avacuum oven at 45° C. providing crude 201 (1.58 g) which was purified byreverse phase (RP) column chromatography (C-18, 0→25% ACN/Water) to givepure 201 (141 mg, 15%).

HPLC (Method A), 2.30 min; LCMS (M⁺1, m/e=284); ¹H NMR (400 MHz,DMSO-d₆) δ 10.66 (br s, 1H), 8.07 (s, 1H), 6.59 (br s, 2H), 5.95 (d,1H), 5.21 (t, 1H), 4.33 (m. 1H), 3.80 (m, 1H), 3.64 (m, 1H), 2.35 (m,1H), 2.21 (m, 1H), 1.15 (d, 3H); ¹⁹F NMR (376 MHz, DMSO-d₆), −140.24.

HPLC Method: (Method A): Agilent Technologies 1100 Series HPLC withdiode array detector. Zorbax Eclipse XDB, C-8 4.6×75 mm. Mobile Phase:ACN/NH₄OAc pH 4.4 buffer (5% to 80% over 10 min). Flow=1.4 ml min⁻¹. DADdetector monitored at 254 and 272 nm.

HPLC Method: (Method B): Agilent Technologies 1100 Series HPLC withdiode array detector. Zorbax Eclipse XDB, C-8 4.6×75 mm. Mobile Phase:ACN/NH₄OAc pH 4.4 buffer (5% to 80% over 10 min, hold 80% for 10 min).Flow=1.4 ml min⁻¹. DAD detector monitored at 254 and 272 nm.

Compound 202

Step 1

To a suspension of nucleoside D1 (54.57 mmol) in pyridine (100 mL) wasadded trityl chloride (55.66 mmol). The reaction mixture was stirred at60° C. for 2 hours. On cooling the solvent was evaporated and theresidue was partitioned between ethyl acetate (250 mL) and water (300mL). The organic fraction was separated, washed with water (300 mL),brine and concentrated under reduced pressure. The crude was purified bychromatography on silica gel (eluent: petroleum ether/ethyl acetate 1:1then 3:7, then ethyl acetate, then ethyl acetate/DCM 1:1) to afford theproduct D2 as a white solid, 24 g (87%); ¹H NMR (CDCl₃) δ (ppm) 8.62 (s,1H), 8.05 (d, 1H), 7.35-7.25 (m, 15H), 6.21 (d, 1H), 5.20 (dd, 1H), 4.25(dt, 1H), 3.95 (dd, 1H), 3.63 (qd, 2H), 1.95 (dd, 1H), 1.43 (d, 3H); MS(ESI) m/z=503 (MH⁺).

Step 2

To a suspension of trityl nucleoside D2 (47.76 mmol) in acetonitrile(300 mL) was added 1,1′-thiocarbonyldiimidazole (71.64 mmol). Thereaction mixture was stirred at 80° C. for 1 hour.1,1′-thiocarbonyldiimidazole (4 g, 23.88 mmol, 0.5 eq) was added andheating continued for a further 1 hour. Water (300 mL) was added and thereaction mixture was cooled to ambient with stirring for 2 hours. Awhite solid was collected by filtration, washed with acetonitrile/water1:1 (100 mL) and then dried in vacuo at 50° C. to give D3: 26.4 g (90%);

¹H NMR (CDCl₃) δ (ppm) 8.42 (s, 1H), 8.30 (s, 1H), 8.12 (d, 1H), 7.65(s, 1H), 7.35-7.25 (m, 15H), 7.10 (s, 1H), 6.50 (dd, 1H), 6.30 (d, 1H),5.18 (d, 1H), 4.44 (d, 1H), 3.71 (d, 1H), 3.44 (d, 1H), 1.50 (d, 3H); MS(ESI) m/z=613 (MH¹).

Step 3

Dry toluene (260 mL) was added to nucleoside D3 (26.4 g, 43.09 mmol, 1eq) and sparged with nitrogen for 45 minutes. Then AIBN (3 g, ˜0.3 eq)and tributyl tin hydride (14 mL, 2 eq) were added and the resultantmixture heated to 100-110° C., whilst continuing to sparge. Once attemperature a static head of nitrogen was applied. After heating for 2hours the reaction mixture was allowed to cool to ambient. Residual lumpof AIBN (˜0.7 g) physically removed by tweezers.

Sodium fluoride (12 g) in water (150 mL) was added to the reaction andvigorously stirred for 30 minutes. The reaction mixture was diluted withethyl acetate (500 mL) and water (500 mL). The organic phase wasseparated, washed with saturated bicarbonate solution (×2), then driedover magnesium sulfate, filter, and evaporated to give ˜46 g of oil. Thecrude compound was purified on silica (1 kg), eluting with petroleumether/ethyl acetate [20, 30, 40, 50 (×2), 60%-2 L each] to afford D4:23.1 g (20.9 g=quant) as a foam that climbs out of flask. ¹H NMR (CDCl₃)δ (ppm) 8.65 (brs, 1H), 8.18 (d, 1H), 7.35-7.25 (m, 15H), 6.22 (d, 1H),5.19 (d, 1H), 4.45 (m, 1H), 3.68 (d, 1H), 3.42 (d, 1H), 2.4-2.1 (m, 2H),1.46 (d, 3H). Trace Bu₃Sn—X+EtOAc; MS (ESI) m/z=486.7 (MH⁺).

Step 4

5N HCl in IPA (15 mL) was added to a solution of trityl ether D4 (23 g,47.27 mmol) in DCM (300 mL). After 1.5 h a solid had started toprecipitate. The reaction mixture was evaporated and the residue wastriturated in hexane/TBME [1:1] (200 mL). A solid was collected byfiltration, washed with fresh hexane/TBME [1:1] (200 mL) and then driedin vacuo at 50° C.:

202: 8.9 g of white solid. (Y=>80% as sm contains solvent and Bu₃Sn—X);¹H NMR (DMSO-d₆ 30° C.) δ (ppm) 11.43 (s, 1H), 8.03 (d, 1H), 6.00 (d,1H), 5.65 (dd, 1H), 5.26 (brs, 1H), 4.27 (m, 1H), 3.81 (dd, 1H), 3.60(dd, 1H), 2.3-2.0 (m, 2H), 1.33 (d, 3H); ¹³C NMR (DMSO 30° C.) 163.45,151.25, 140.2, 106.0, 104.0, 102.5, 90.2 (d?), 80.93, 60.68, 37.0 (d),19.2 (d); MS (ESI) m/z=244.8 (MH⁺).

E2 was synthesized from compound E1 as described for compound D2 with 2eq. of trityl chloride and stirring at 60° C. over the weekend. Oncooling the solvent was evaporated. The residue was diluted with DCM andextracted with water. The organic layer was dried over sodium sulfateand concentrated under reduced pressure to afford a crude residue. Thisresidue was purified by chromatography on silica gel (eluent:DCM/methanol: 0 to 15%) to afford two compounds: a monotritylatedcompound, and the expected compound as a pale yellow foam in 64% yield.¹H NMR (CDCl₃, 400 MHz) δ (ppm) 7.94 (d, 1H), 7.50-7.00 (m, 30H), 6.24(d, 1H), 4.60 (d, 1H), 4.10 (dd, 1H), 3.89 (d, 1H), 3.60 (d, 1H), 3.50(d, 1H), 1.99 (dd, 1H), 1.43 (d, 3H); MS (ESI) m/z=744 (MH⁺).

E3 was synthesized from compound E2 as described for compound D3 with 2eq. of 1,1′-thiocarbonyldiimidazole and stirring at 80° C. for 2 hours.The compound was not isolated and the next step was done in situ. Thereaction mixture was allowed to cool to room temperature. Anhydroustoluene was added and the reaction sparged with nitrogen for 30 minutes.Then tributyl tin hydride (2 eq.) and AIBN (0.2 eq.) were added and theresultant mixture was heated to 80° C., whilst continuing to sparge.After heating for 2 hours under nitrogen, the reaction mixture wascooled to room temperature. The reaction was monitored by LC/MS.Addition of AIBN (0.14 eq.), heating at 100° C. followed by stirring atroom temperature for 24 h and addition of tributyl tin hydride (2 eq.),AIBN (0.3 eq.) and heating at 100° C. for 2 hours were required toobtain a ratio 1:2 of expected compound/starting material. The reactionmixture was cooled to room temperature, then diluted with ethyl acetateand washed with sodium fluoride solution, a aqueous saturated NaHCO₃solution. The organic layer was dried over sodium sulfate andconcentrated under reduced pressure. The crude residue was purified by 2successive chromatographies on silica gel (petroleum ether/ethylacetate: 50 to 100%) to afford the expected compound E4 as a crisp foam.¹H NMR (CDCl₃, 400 MHz) δ (ppm) 8.02 (d, 1H), 7.50-7.00 (m, 30H), 6.20(d, 1H), 4.55 (d, 1H), 4.30 (m, 1H), 3.42 (dd, 1H), 3.30 (dd, 1H),2.20-2.00 (m, 2H), 1.40 (d, 3H); MS (ESI) m/z=728 (MH⁺).

E5 was synthesized from compound E4 as described for compound 202. Thereaction mixture was quenched with careful addition of solid sodiumhydrogen carbonate. The reaction mixture was filtered and the filtratewas concentrated under reduced pressure to afford an oil. This crude oilwas treated with TBME and hexane, and triturated overnight. The mixturewas filtered off to afford a solid, washing with TBME/hexane [1:1], thenhexane and dried in vacuo to afford a white solid in 75% yield. ¹H NMR(DMSO-d₆, 400 MHz) δ (ppm) 8.45 (s, 1H), 7.85 (d, 1H), 7.50-7.00 (m,15H), 6.25 (d, 1H), 6.00 (brd, 1H), 5.20 (brs, 1H), 4.15 (m, 1H), 3.80(d, 1H), 3.60 (d, 1H), 2.20-1.80 (m, 2H), 1.00 (d, 3H); MS (ESI)m/z=485.8 (MH⁺).

Example 2 HCV Polymerase Enzyme Assay

Test compounds in the form of nucleoside triphosphates were examined forinhibitory activity against purified HCV polymerase in a standard assay.Bacterial expression constructs encoding the approximately 65 kDa HCVgenotype 1b NS5B protein were used to generate recombinant HCVpolymerases (with a deletion of the 21 carboxy terminal amino acids).Both the wild-type genotype 1b protein and protein containing the S282Tmutation were expressed and purified for use in the enzymatic activityassay.

The enzymatic activity assay measured the inhibitory effect ofincreasing concentrations of test compound on the incorporation ofα-[³³P]-labeled nucleotide into trichloroacetic acid-precipitablematerial. Recombinant polymerase and synthetic RNA template werecombined in reaction buffer containing ribonucleoside triphosphates,α-[³³P]-labeled nucleotide and eight concentrations of test compound inthree-fold dilutions. Reactions were incubated for two hours at 30° C.

Reactions were terminated by the addition of ice-cold trichloroaceticacid and sodium pyrophosphate to promote precipitation ofnewly-synthesized ribonucleic acid. Precipitable material from thereactions was collected by filtration onto 96-well filter plates, washedextensively with water, and quantified by liquid scintillation.

The inhibitory activity of test compounds was determined by fittingresults to dose-response curves using XLfit software.

Results are provided in Table 3.

TABLE 3 HCV Polymerase Enzyme Activity Wild-Type S282T Compound IC₅₀(μM) IC₅₀ (μM) Compound 101 ++++ ++ Compound 102 ++ + ^(a) ND = notdetermined IC₅₀ is provided as follows: ++++ ≦ 250 nM < +++ ≦ 1 μM < ++≦ 10 μM < +.

Example 3 HCV Replicon Assay

Huh-7-derived cell line (Zluc) that harbors an HCV genotype 1b repliconand a luciferase reporter gene was grown in Dulbecco's Modified EagleMedium (DMEM) supplemented with 10% fetal bovine serum, 2 mM GlutaMAX,1% MEM nonessential amino acids, 100 IU/mL penicillin, 100 μg/mLstreptomycin, and 0.5 mg/mL Geneticin® (G418). For dose response testingthe cells were seeded in 96-well plates at 7.5×10³ cells per well in avolume of 50 μL, and incubated at 37° C./5% CO₂. Drug solutions weremade up freshly in Huh-7 media as 2× stocks. Ten additional 5-folddilutions were prepared from these stocks in DMEM without G418. At leastthree hours after Zluc cells were seeded, drug treatment was initiatedby adding 50 μL of drug dilutions to the plates in duplicate. Finalconcentrations of drug ranged from 100 μM to 0.0000512 μM. Cells werethen incubated at 37° C./5% CO₂. Alternatively, compounds were tested attwo concentrations (1 μM and 10 μM). In all cases, Huh-7 (which do notharbors the HCV replicon) served as negative control. After 72 hours ofincubation, the inhibition of HCV replication was measured byquantification of photons emitted after mono-oxygenation of5′-fluoroluciferin to oxyfluoroluciferin by firefly luciferase. Forthis, media was removed from the plates via gentle tapping. Fiftymicroliters of ONE-glo luciferase assay reagent was added to each well.The plates were shaken gently for 3 min at room temperature andluminescence was measured on a Victor³ V 1420 multilabel counter (PerkinElmer) with a 1 second read time using a 700 nm cut-off filter. The EC₅₀values were calculated from dose response curves from the resultingbest-fit equations determined by Microsoft Excel and XLfit 4.1 software.When screening at two fixed concentrations, the results were expressedas % inhibition at 1 μM and 10 μM.

For cytotoxicity evaluation, Zluc cells were treated with test compoundas described herein, and cell viability was monitored using theCellTiter-Blue Cell Viability Assay (Promega) by adding 20 μL of theassay solution to each well. The plates were then incubated at 37° C./5%CO₂ for at least 3 hours. Fluorescence was detected in plates usingexcitation and emission wavelengths of 560 and 590 nm, respectively, ina Victor³ V 1420 multilabel counter (Perkin Elmer) and CC₅₀ values weredetermined using Microsoft Excel and XLfit 4.1 software.

Compounds presented in Table 4 below were assayed according to thereplicon assay described herein.

TABLE 4 HCV Replicon Activity Compound HCV Replicon Compound HCVReplicon Reference EC₅₀ CC₅₀ Reference EC₅₀ CC₅₀ Compound 1b ++ ++Compound lb + ++ Diastereomer 1 Diastereomer 2 Compound 2a + ++ Compound2a + ++ Diastereomer 1 Diastereomer 2 Compound 2b + ++ Compound 2b ++ ++Diastereomer 1 Diastereomer 2 Compound 3b + ++ Compound 3b + ++Diastereomer 1 Diastereomer 2 Compound 4b +++ ++ Compound 4b ++ ++Diastereomer 1 Diastereomer 2 Compound 201 + ++ Compound 202 + ++ EC₅₀is provided as follows: ++++ ≦ 250 nM < +++ ≦ 1 μM < ++ ≦ 10 μM < + CC₅₀is provided as follows: + ≦ 5 0 μM < ++

All publications, patents, and patent applications cited in thisspecification are herein incorporated by reference as if each individualpublication, patent, or patent application were specifically andindividually indicated to be incorporated by reference. While theclaimed subject matter has been described in terms of variousembodiments, the skilled artisan will appreciate that variousmodifications, substitutions, omissions, and changes may be made withoutdeparting from the spirit thereof. Accordingly, it is intended that thescope of the claimed subject matter is limited solely by the scope ofthe following claims, including equivalents thereof.

What is claimed is:
 1. A compound according to Formula Ia or Ib:

or a pharmaceutically acceptable salt, solvate, tautomeric form, orpolymorphic form thereof, wherein: Base¹ is

or a tautomeric form thereof; Base² is

or a tautomeric form thereof; R⁴ is hydrogen, hydroxyl, amino, oralkoxyl; R⁵ is hydrogen, hydroxyl, or alkoxyl; R⁶ is hydrogen, halogen,or alkyl; R⁷ is hydrogen or —NH₂; PD is

W is S or O; each of X and Y is independently hydrogen, —OR¹, —SR¹,—NR¹R², or an N-linked amino acid, or ester thereof; each R¹ isindependently hydrogen, alkyl, cycloalkyl, aryl, heteroaryl, arylalkyl,or heteroarylalkyl; and each R² is independently hydrogen or alkyl. 2.The compound of claim 1 according to formula II:

or a pharmaceutically acceptable salt, solvate, tautomeric form, orpolymorphic form thereof.
 3. The compound of claim 1, wherein W is O. 4.A compound according to formula III or IV:

or a pharmaceutically acceptable salt, solvate, tautomeric form, orpolymorphic form thereof, wherein: Ar¹ is aryl or heteroaryl; R³ isalkyl; Base² is

or a tautomeric form thereof; R⁴ is hydrogen, hydroxyl, amino, oralkoxyl; R⁵ is hydrogen, hydroxyl, or alkoxyl; R⁶ is hydrogen, halogen,or alkyl; and Y is hydrogen, —OR¹, —SR¹, —NR¹R², or an N-linked aminoacid, or ester thereof.
 5. The compound of claim 4, wherein R³ isbranched hydroxyalkyl.
 6. The compound of claim 4, wherein R³ is—C(CH₃)₂CH₂OH.
 7. The compound of claim 1 according to any of FormulasV-VIII:

or a pharmaceutically acceptable salt, solvate, tautomeric form, orpolymorphic form thereof.
 8. The compound of claim 1 according to any ofFormulas IX-XI:

or a pharmaceutically acceptable salt, solvate, tautomeric form, orpolymorphic form thereof.
 9. The compound of claim 1 according toFormula (Ia):

or a pharmaceutically acceptable salt, solvate, tautomeric form orpolymorphic form thereof.
 10. The compound of claim 1 according toFormula Iai or Iaii:

or a pharmaceutically acceptable salt, solvate, tautomeric form, orpolymorphic form thereof.
 11. The compound of claim 1 according to anyof formulas (1a), (2a), (102), and (4):

or a pharmaceutically acceptable salt, solvate, tautomeric form, orpolymorphic form thereof.
 12. A compound according to Formula (3):

or a pharmaceutically acceptable salt, solvate, tautomeric form orpolymorphic form thereof.
 13. A pharmaceutical composition comprisingthe compound of claim 1 and a pharmaceutically acceptable excipient,carrier, or diluent.
 14. The pharmaceutical composition of claim 13,wherein the composition is an oral formulation.
 15. A method for thetreatment of a host infected with a hepatitis C virus, comprising theadministration of an effective treatment amount of a compound ofclaim
 1. 16. The method of claim 15, wherein the host is a human. 17.The method of claim 16, wherein the administration directs a substantialamount of the compound, or pharmaceutically acceptable salt thereof, toa liver of the host.
 18. The method of claim 15, wherein the compound isadministered in combination or alternation with a second anti-viralagent, wherein the second anti-viral agent is an interferon, anucleotide analogue, a polymerase inhibitor, an NS3 protease inhibitor,an NS5A inhibitor, an entry inhibitor, a non-nucleoside polymeraseinhibitor, a cyclosporine immune inhibitor, an NS4A antagonist, anNS4B-RNA binding inhibitor, a locked nucleic acid mRNA inhibitor, acyclophilin inhibitor, or a combination thereof.
 19. The method of claim18, wherein the second anti-viral agent is IDX-719, TMC435, PSI-7977,telaprevir, boceprevir, interferon alfacon-1, interferon alfa-2b,pegylated interferon alpha 2a, pegylated interferon alpha 2b, ribavirin,or a combination thereof.
 20. The method of claim 18, wherein the secondanti-viral agent is IDX-719, TMC435, PSI-7977, telaprevir, boceprevir,interferon alfacon-1, interferon alfa-2b, pegylated interferon alpha 2a,pegylated interferon alpha 2b, or a combination thereof, and furtherwherein the administration is not in combination or alternation withribavirin.
 21. A pharmaceutical composition comprising the compound ofclaim 4 and a pharmaceutically acceptable excipient, carrier, ordiluent.
 22. A method for the treatment of a human host infected with ahepatitis C virus, comprising the administration of an effectivetreatment amount of a compound of claim
 4. 23. The compound of claim 1where each of X and Y is independently hydrogen, —OR¹, —SR¹, —NR¹R², oran N-linked amino acid ester.
 24. A compound according to Formula Ia orIb:

or a pharmaceutically acceptable salt, solvate, tautomeric form, orpolymorphic form thereof, wherein: Base¹ is

or a tautomeric form thereof; Base² is

or a tautomeric form thereof; R⁴ is hydrogen, hydroxyl, —NH₂, —O-(alkyl)or —O-(unsubstituted cycloalkyl); R⁵ is hydrogen, hydroxyl, orunsubstituted alkoxyl; R⁶ is hydrogen, halogen, or optionallysubstituted alkyl; R⁷ is hydrogen or —NH₂; PD is hydrogen,

W is S or O; each of X and Y is independently hydrogen, —OR¹, —SR¹,—NR¹R², an N-linked amino acid, or —NR^(X)-G(S_(C))—C(O)-Q¹; each Q¹ isindependently —SR^(Y), —NR^(Y)R^(Y), or alkoxyl; each R^(Y) isindependently hydrogen or optionally substituted alkyl; each S_(C) isindependently a side chain of a naturally occurring or non-naturallyoccurring amino acid or is hydrogen, optionally substituted alkyl,arylalkyl, carboxylalkyl, heteroarylalkyl, aminoalkyl, hydroxylalkyl,aminoiminoaminoalkyl, aminocarbonylalkyl, sulfanylalkyl, carbamoylalkyl,alkylsulfanylalkyl, or hydroxylarylalkyl; each G is independentlyunsubstituted C₁-C₂ alkyl; each R^(X) is independently hydrogen or R^(X)and S_(C), together with the atoms to which they are attached, combineto form a five-membered heterocyclic ring; each R¹ is independentlyhydrogen, optionally substituted alkyl, cycloalkyl, aryl, heteroaryl,arylalkyl, or heteroarylalkyl; and each R² is independently hydrogen oroptionally substituted alkyl; each alkyl is independently anunsubstituted C₁ to C₁₀ saturated hydrocarbon, unless specifiedotherwise; and when substituted is substituted with one or more moietiesindependently selected from halogen, hydroxyl, sulfanyl, —NR^(1′)R^(2′)(wherein R^(1′) and R^(2′) are independently selected from hydrogen,alkyl, and cycloalkyl), —NH(alkyl), —N(alkyl)₂, —NH(aryl), —N(aryl)₂,alkoxy, aryloxy, nitro, cyano, sulfonic acid, sulfate, phosphonic acid,phosphate, and phosphonate; each alkoxy is —OR′ where each R′ isindependently alkyl or cycloalkyl; and each alkoxy is independentlyoptionally substituted, unless specified otherwise; each amino is—NR^(1′) R^(2′) or —NR^(1′), wherein R^(1′) and R^(2′) are independentlyselected from hydrogen, alkyl, and cycloalkyl; each aryl isindependently phenyl, biphenyl, or naphthyl and is optionallysubstituted; and when substituted is substituted with one or moremoieties independently selected from halogen, alkyl, haloalkyl,hydroxyl, amino, alkylamino, arylamino, alkoxy, aryloxy, nitro, cyano,sulfonic acid, sulfate, phosphonic acid, phosphate, and phosphonate;each cycloalkyl is an optionally substituted monocyclic saturated C₃₋₁₅hydrocarbon or a saturated, bridged or fused bicyclic C₃₋₁₅ hydrocarbon;and when substituted is substituted with one or more moietiesindependently selected from halogen, hydroxyl, sulfanyl, amino,alkylamino, arylamino, alkoxy, aryloxy, nitro, cyano, sulfonic acid,sulfate, phosphonic acid, phosphate, and phosphonate; each heteroaryl isindependently a monovalent monocyclic aromatic group with 5 to 20 ringatoms or multicyclic aromatic group that contains at least one aromaticring with 5 to 20 ring atoms; wherein the monocyclic ring and at leastone aromatic ring in the multicyclic ring contains one or moreheteroatoms independently selected from O, S, and N in the ring providedthat the total number of heteroatoms in each ring is four or less andeach ring contains at least one carbon atom; wherein the heteroaryl isbonded to the rest of the molecule through the aromatic ring; andheterocyclic means a monovalent monocyclic non-aromatic ring system, ora bicyclic, tricyclic, or tetracyclic ring system which contains atleast one non-aromatic ring and the other ring(s) may be partiallysaturate, fully saturated, or aromatic, and which bi-, tri- andtetracyclic ring can be fused or bridged; wherein one or more of thenon-aromatic ring atoms is a heteroatoms independently selected from O,S, and N and the remaining ring atoms are carbon atoms and where thenitrogen or sulfur atoms may be optionally oxidized and the nitrogenatoms may be optionally quaternized; wherein the ring has 3 to 20 ringatoms; and wherein the heterocyclic is attached to the main structure atany heteroatom or carbon atom which results in the creation of a stablecompound.